https://github.com/bioconductor/gha-build-rstudio-release-amd64

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spacy-extension bioconductor docker-image integration

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Host: GitHub
Owner: Bioconductor
Language: R
Default Branch: main
Size: 207 MB

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Watchers: 9
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Open Issues: 0
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Created over 2 years ago · Last pushed over 1 year ago

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0 Bioconductor sotware binaries built

0 Other dependency binaries built

0 failed packages

2232 unclaimed packages

Failed (0)

| Package | Status | BBS Status | Log | Known Error | |-----------|----------|--------------|-------|---------------|

Unclaimed (2232)

| Package | Status | Blocked By | |-----------------------------|-----------|----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------| | a4 | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, a4Base, a4Classif, a4Core, a4Preproc, a4Reporting, annaffy, annotate, genefilter, limma, multtest, zlibbioc. | | a4Base | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, a4Core, a4Preproc, annaffy, annotate, genefilter, limma, multtest, zlibbioc. | | a4Classif | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, a4Core, a4Preproc. | | a4Core | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | a4Preproc | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | a4Reporting | Unclaimed | | | ABarray | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, multtest. | | abseqR | Unclaimed | Incomplete Bioc dependencies: BiocParallel, BiocStyle. | | ABSSeq | Unclaimed | Incomplete Bioc dependencies: limma. | | acde | Unclaimed | | | ACE | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, CGHbase, CGHcall, DNAcopy, GenomeInfoDb, GenomicRanges, IRanges, QDNAseq, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, impute, limma, marray, zlibbioc. | | aCGH | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, multtest. | | ACME | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | ADaCGH2 | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, DNAcopy, GLAD, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, aCGH, affy, affyio, annotate, genefilter, limma, multtest, preprocessCore, tilingArray, vsn, zlibbioc. | | ADAM | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | ADAMgui | Unclaimed | Incomplete Bioc dependencies: ADAM, AnnotationDbi, Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | ADAPT | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, Rhdf5lib, S4Vectors, UCSC.utils, XVector, biomformat, multtest, phyloseq, rhdf5, rhdf5filters, zlibbioc. | | adductomicsR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, ExperimentHub, GenomeInfoDb, IRanges, KEGGREST, ProtGenerics, Rhdf5lib, S4Vectors, UCSC.utils, XVector, mzR, zlibbioc. | | ADImpute | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | adSplit | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, multtest, zlibbioc. | | adverSCarial | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, DelayedArray, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, XVector, zlibbioc. | | AffiXcan | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | affxparser | Unclaimed | | | affy | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, affyio, preprocessCore, zlibbioc. | | affycomp | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | affyContam | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, affy, affyio, preprocessCore, zlibbioc. | | affycoretools | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationForge, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, Category, DESeq2, DelayedArray, GOstats, GSEABase, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Glimma, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, ReportingTools, Rgraphviz, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, affy, affyio, annotate, biomaRt, biovizBase, edgeR, ensembldb, gcrma, genefilter, ggbio, graph, limma, oligoClasses, preprocessCore, rtracklayer, txdbmaker, zlibbioc. | | affyILM | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, affxparser, affy, affyio, gcrma, preprocessCore, zlibbioc. | | affyio | Unclaimed | Incomplete Bioc dependencies: zlibbioc. | | affylmGUI | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, affy, affyPLM, affyio, gcrma, limma, preprocessCore, zlibbioc. | | affyPLM | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, affy, affyio, gcrma, preprocessCore, zlibbioc. | | AffyRNADegradation | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, affy, affyio, preprocessCore, zlibbioc. | | AGDEX | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GSEABase, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, graph, zlibbioc. | | aggregateBioVar | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | agilp | Unclaimed | | | AgiMicroRna | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationForge, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, Category, DESeq2, DelayedArray, GOstats, GSEABase, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Glimma, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, ReportingTools, Rgraphviz, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, affy, affycoretools, affyio, annotate, biomaRt, biovizBase, edgeR, ensembldb, gcrma, genefilter, ggbio, graph, limma, oligoClasses, preprocessCore, rtracklayer, txdbmaker, zlibbioc. | | AHMassBank | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationForge, AnnotationHub, AnnotationHubData, Biobase, BiocBaseUtils, BiocCheck, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biocViews, biomaRt, graph, rtracklayer, txdbmaker, zlibbioc. | | AIMS | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | airpart | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, apeglm, assorthead, beachmat, scater, scuttle, zlibbioc. | | alabaster | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, BumpyMatrix, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, alabaster.base, alabaster.bumpy, alabaster.mae, alabaster.matrix, alabaster.ranges, alabaster.sce, alabaster.schemas, alabaster.se, alabaster.spatial, alabaster.string, alabaster.vcf, rhdf5, rhdf5filters, rtracklayer, zlibbioc. | | alabaster.base | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Rhdf5lib, S4Vectors, alabaster.schemas, rhdf5, rhdf5filters. | | alabaster.bumpy | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BumpyMatrix, IRanges, Rhdf5lib, S4Vectors, alabaster.base, alabaster.schemas, rhdf5, rhdf5filters. | | alabaster.files | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, Rhdf5lib, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, alabaster.base, alabaster.schemas, rhdf5, rhdf5filters, zlibbioc. | | alabaster.mae | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, MultiAssayExperiment, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, alabaster.base, alabaster.matrix, alabaster.ranges, alabaster.schemas, alabaster.se, rhdf5, rhdf5filters, zlibbioc. | | alabaster.matrix | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, DelayedArray, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, XVector, alabaster.base, alabaster.schemas, rhdf5, rhdf5filters, zlibbioc. | | alabaster.ranges | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, Rhdf5lib, S4Vectors, UCSC.utils, XVector, alabaster.base, alabaster.schemas, rhdf5, rhdf5filters, zlibbioc. | | alabaster.sce | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, alabaster.base, alabaster.matrix, alabaster.ranges, alabaster.schemas, alabaster.se, rhdf5, rhdf5filters, zlibbioc. | | alabaster.schemas | Unclaimed | | | alabaster.se | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, alabaster.base, alabaster.matrix, alabaster.ranges, alabaster.schemas, rhdf5, rhdf5filters, zlibbioc. | | alabaster.spatial | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, alabaster.base, alabaster.matrix, alabaster.ranges, alabaster.sce, alabaster.schemas, alabaster.se, rhdf5, rhdf5filters, zlibbioc. | | alabaster.string | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, Rhdf5lib, S4Vectors, UCSC.utils, XVector, alabaster.base, alabaster.schemas, rhdf5, rhdf5filters, zlibbioc. | | alabaster.vcf | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, alabaster.base, alabaster.matrix, alabaster.ranges, alabaster.schemas, alabaster.se, alabaster.string, rhdf5, rhdf5filters, rtracklayer, zlibbioc. | | ALDEx2 | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, multtest, zlibbioc. | | alevinQC | Unclaimed | Incomplete Bioc dependencies: tximport. | | AllelicImbalance | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, zlibbioc. | | AlphaBeta | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | AlphaMissenseR | Unclaimed | Incomplete Bioc dependencies: BiocBaseUtils, BiocFileCache. | | AlpsNMR | Unclaimed | Incomplete Bioc dependencies: BiocParallel, MassSpecWavelet, impute, mixOmics. | | altcdfenvs | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, affy, affyio, graph, hypergraph, makecdfenv, preprocessCore, zlibbioc. | | AMARETTO | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, ComplexHeatmap, DelayedArray, ExperimentHub, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, impute, limma, rhdf5, rhdf5filters, zlibbioc. | | AMOUNTAIN | Unclaimed | | | amplican | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pwalign, zlibbioc. | | Anaquin | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, qvalue, zlibbioc. | | ANCOMBC | Unclaimed | | | AneuFinder | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DNAcopy, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, bamsignals, zlibbioc. | | ANF | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | animalcules | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, zlibbioc. | | annaffy | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | annmap | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, annotate, genefilter, zlibbioc. | | annotate | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | AnnotationDbi | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | AnnotationFilter | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | AnnotationForge | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | AnnotationHub | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | AnnotationHubData | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationForge, AnnotationHub, Biobase, BiocBaseUtils, BiocCheck, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biocViews, biomaRt, graph, rtracklayer, txdbmaker, zlibbioc. | | annotationTools | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | annotatr | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, regioneR, rtracklayer, zlibbioc. | | anota | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, multtest, qvalue. | | anota2seq | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, multtest, qvalue, zlibbioc. | | antiProfiles | Unclaimed | | | AnVIL | Unclaimed | Incomplete Bioc dependencies: AnVILBase, BiocBaseUtils. | | AnVILAz | Unclaimed | Incomplete Bioc dependencies: AnVILBase, BiocBaseUtils. | | AnVILBase | Unclaimed | | | AnVILBilling | Unclaimed | | | AnVILGCP | Unclaimed | Incomplete Bioc dependencies: AnVILBase, BiocBaseUtils. | | AnVILPublish | Unclaimed | Incomplete Bioc dependencies: AnVIL, AnVILBase, AnVILGCP, BiocBaseUtils. | | AnVILWorkflow | Unclaimed | Incomplete Bioc dependencies: AnVIL, AnVILBase, AnVILGCP, BiocBaseUtils. | | APAlyzer | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HybridMTest, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, Rsubread, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | apComplex | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, RBGL, Rgraphviz, S4Vectors, UCSC.utils, XVector, graph, zlibbioc. | | apeglm | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | APL | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, graph, topGO, zlibbioc. | | appreci8R | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, GenomicScores, HDF5Array, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, RBGL, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, graph, rhdf5, rhdf5filters, rtracklayer, txdbmaker, zlibbioc. | | aroma.light | Unclaimed | | | ArrayExpress | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affxparser, affyio, limma, oligo, oligoClasses, preprocessCore, zlibbioc. | | arrayMvout | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyContam, affyio, annotate, bumphunter, genefilter, illuminaio, limma, lumi, mdqc, methylumi, minfi, multtest, parody, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | arrayQuality | Unclaimed | Incomplete Bioc dependencies: limma, marray. | | arrayQualityMetrics | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BeadDataPackR, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, affy, affyPLM, affyio, annotate, beadarray, gcrma, genefilter, illuminaio, limma, preprocessCore, vsn, zlibbioc. | | ARRmNormalization | Unclaimed | | | artMS | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, MSstats, MSstatsConvert, S4Vectors, UCSC.utils, XVector, limma, marray, preprocessCore, zlibbioc. | | ASAFE | Unclaimed | | | ASEB | Unclaimed | | | ASGSCA | Unclaimed | | | ASICS | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, MultiDataSet, PepsNMR, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, ropls, zlibbioc. | | ASpli | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocStyle, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, edgeR, ensembldb, limma, rtracklayer, txdbmaker, zlibbioc. | | AssessORF | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, DECIPHER, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | ASSET | Unclaimed | | | ASSIGN | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, annotate, edgeR, genefilter, limma, sva, zlibbioc. | | assorthead | Unclaimed | | | ASURAT | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | ATACseqQC | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, CNEr, ChIPpeakAnno, DelayedArray, DirichletMultinomial, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, GenomicScores, HDF5Array, IRanges, InteractionSet, KEGGREST, MatrixGenerics, ProtGenerics, RBGL, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TFBSTools, UCSC.utils, XVector, annotate, biomaRt, edgeR, ensembldb, graph, limma, motifStack, multtest, pwalign, regioneR, rhdf5, rhdf5filters, rtracklayer, seqLogo, universalmotif, zlibbioc. | | ATACseqTFEA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, CNEr, DelayedArray, DirichletMultinomial, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TFBSTools, UCSC.utils, XVector, annotate, limma, motifmatchr, pwalign, rtracklayer, seqLogo, zlibbioc. | | atena | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, sparseMatrixStats, zlibbioc. | | atSNP | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, CNEr, DelayedArray, DirichletMultinomial, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TFBSTools, UCSC.utils, XVector, annotate, motifStack, pwalign, rtracklayer, seqLogo, zlibbioc. | | attract | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationForge, Biobase, BiocGenerics, Biostrings, Category, GOstats, GSEABase, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, RBGL, Rgraphviz, S4Vectors, UCSC.utils, XVector, annotate, genefilter, graph, limma, zlibbioc. | | AUCell | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, DelayedArray, DelayedMatrixStats, GSEABase, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, graph, sparseMatrixStats, zlibbioc. | | autonomics | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, edgeR, limma, preprocessCore, vsn, zlibbioc. | | AWFisher | Unclaimed | Incomplete Bioc dependencies: edgeR, limma. | | awst | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | BaalChIP | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | bacon | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | BADER | Unclaimed | | | BadRegionFinder | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, rtracklayer, zlibbioc. | | BAGS | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | ballgown | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, genefilter, limma, rtracklayer, sva, zlibbioc. | | bambu | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | bamsignals | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, Rhtslib, S4Vectors, UCSC.utils, XVector, zlibbioc. | | BANDITS | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, DRIMSeq, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | bandle | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocParallel, BiocStyle, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MLInterfaces, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, annotate, biomaRt, genefilter, impute, limma, mzID, mzR, pRoloc, pcaMethods, preprocessCore, vsn, zlibbioc. | | Banksy | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | banocc | Unclaimed | | | barcodetrackR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | basecallQC | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pwalign, zlibbioc. | | BaseSpaceR | Unclaimed | | | Basic4Cseq | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | BASiCS | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, limma, metapod, scran, scuttle, zlibbioc. | | BASiCStan | Unclaimed | Incomplete Bioc dependencies: BASiCS, Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, glmGamPoi, limma, metapod, rhdf5, rhdf5filters, scran, scuttle, sparseMatrixStats, zlibbioc. | | BasicSTARRseq | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | basilisk | Unclaimed | Incomplete Bioc dependencies: basilisk.utils, dir.expiry. | | basilisk.utils | Unclaimed | Incomplete Bioc dependencies: dir.expiry. | | batchelor | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, ResidualMatrix, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, scuttle, sparseMatrixStats, zlibbioc. | | BatchQC | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, Biostrings, DESeq2, DelayedArray, EBSeq, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, assorthead, beachmat, bluster, edgeR, genefilter, limma, metapod, scran, scuttle, sva, zlibbioc. | | BayesKnockdown | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | BayesSpace | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, limma, metapod, rhdf5, rhdf5filters, scater, scran, scuttle, zlibbioc. | | bayNorm | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | baySeq | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | BBCAnalyzer | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | BCRANK | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | bcSeq | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | beachmat | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, DelayedArray, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, XVector, assorthead, zlibbioc. | | beachmat.hdf5 | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, DelayedArray, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, XVector, assorthead, beachmat, rhdf5, rhdf5filters, zlibbioc. | | beadarray | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BeadDataPackR, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, illuminaio, limma, zlibbioc. | | BeadDataPackR | Unclaimed | | | BEAT | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pwalign, rtracklayer, zlibbioc. | | BEclear | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | beer | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, PhIPData, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | benchdamic | Unclaimed | Incomplete Bioc dependencies: ALDEx2, ANCOMBC, AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MAST, Maaslin2, MatrixGenerics, NOISeq, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, TreeSummarizedExperiment, UCSC.utils, Wrench, XVector, annotate, biomformat, dearseq, edgeR, genefilter, limma, metagenomeSeq, microbiome, mixOmics, multtest, phyloseq, rhdf5, rhdf5filters, treeio, zinbwave, zlibbioc. | | BERT | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, genefilter, limma, sva, zlibbioc. | | betaHMM | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | bettr | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | BG2 | Unclaimed | | | BgeeCall | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, rhdf5, rhdf5filters, rtracklayer, txdbmaker, tximport, zlibbioc. | | BgeeDB | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, basilisk, basilisk.utils, dir.expiry, graph, rhdf5, rhdf5filters, topGO, zellkonverter, zlibbioc. | | BicARE | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GSEABase, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, graph, multtest, zlibbioc. | | BiFET | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | BiGGR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Rgraphviz, graph, hyperdraw, hypergraph, rsbml. | | bigmelon | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, ROC, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, annotate, bumphunter, gdsfmt, genefilter, illuminaio, limma, lumi, methylumi, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, wateRmelon, zlibbioc. | | BindingSiteFinder | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | bioassayR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, ChemmineR. | | Biobase | Unclaimed | Incomplete Bioc dependencies: BiocGenerics. | | biobroom | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | biobtreeR | Unclaimed | | | bioCancer | Unclaimed | Incomplete Bioc dependencies: AnVIL, AnVILBase, AnnotationDbi, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DOSE, DelayedArray, EBarrays, GOSemSim, GenomeInfoDb, GenomicAlignments, GenomicDataCommons, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, RTCGAToolbox, RaggedExperiment, ReactomePA, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TCGAutils, UCSC.utils, XVector, cBioPortalData, clusterProfiler, enrichplot, fgsea, geNetClassifier, ggtree, graph, graphite, minet, qvalue, rtracklayer, treeio, zlibbioc. | | BioCartaImage | Unclaimed | | | BiocBaseUtils | Unclaimed | | | BiocBook | Unclaimed | Incomplete Bioc dependencies: BiocGenerics. | | BiocCheck | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, RBGL, biocViews, graph. | | BiocFHIR | Unclaimed | Incomplete Bioc dependencies: BiocBaseUtils, BiocGenerics, graph. | | BiocFileCache | Unclaimed | | | BiocGenerics | Unclaimed | | | biocGraph | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, Rgraphviz, S4Vectors, UCSC.utils, XVector, annotate, geneplotter, graph, zlibbioc. | | BiocHubsShiny | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, ExperimentHub, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | BiocIO | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, S4Vectors. | | BiocNeighbors | Unclaimed | Incomplete Bioc dependencies: assorthead. | | BioCor | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, GSEABase, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, graph, zlibbioc. | | BiocParallel | Unclaimed | | | BiocPkgTools | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, RBGL, biocViews, graph. | | biocroxytest | Unclaimed | | | BiocSet | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | BiocSingular | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, DelayedArray, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SparseArray, XVector, assorthead, beachmat, zlibbioc. | | BiocSklearn | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, basilisk, basilisk.utils, dir.expiry, zlibbioc. | | BiocStyle | Unclaimed | | | biocthis | Unclaimed | | | BiocVersion | Unclaimed | | | biocViews | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RBGL, graph. | | BiocWorkflowTools | Unclaimed | Incomplete Bioc dependencies: BiocStyle. | | biodb | Unclaimed | Incomplete Bioc dependencies: BiocFileCache. | | biodbChebi | Unclaimed | Incomplete Bioc dependencies: BiocFileCache, biodb. | | biodbHmdb | Unclaimed | Incomplete Bioc dependencies: BiocFileCache, biodb. | | biodbNcbi | Unclaimed | Incomplete Bioc dependencies: BiocFileCache, biodb. | | biodbNci | Unclaimed | Incomplete Bioc dependencies: BiocFileCache, biodb. | | biodbUniprot | Unclaimed | Incomplete Bioc dependencies: BiocFileCache, biodb. | | bioDist | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | BioGA | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocStyle, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, RBGL, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biocViews, graph, zlibbioc. | | biomaRt | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | biomformat | Unclaimed | Incomplete Bioc dependencies: Rhdf5lib, rhdf5, rhdf5filters. | | BioMVCClass | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, MVCClass, Rgraphviz, graph. | | biomvRCNS | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, zlibbioc. | | BioNAR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, fgsea, graph, impute, preprocessCore, zlibbioc. | | BioNERO | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, ComplexHeatmap, DelayedArray, GENIE3, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, genefilter, impute, limma, minet, preprocessCore, sva, zlibbioc. | | BioNet | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, RBGL, S4Vectors, UCSC.utils, XVector, graph, zlibbioc. | | BioQC | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, edgeR, limma. | | biosigner | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, MultiDataSet, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, ropls, zlibbioc. | | Biostrings | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | BioTIP | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, limma, metapod, scran, scuttle, zlibbioc. | | biotmle | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, zlibbioc. | | biovizBase | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, ensembldb, rtracklayer, zlibbioc. | | BiRewire | Unclaimed | | | biscuiteer | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, CGHbase, CGHcall, DNAcopy, DelayedArray, DelayedMatrixStats, ExperimentHub, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, QDNAseq, RBGL, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, annotatr, assorthead, beachmat, biomaRt, bsseq, bumphunter, dmrseq, graph, impute, limma, marray, regioneR, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, txdbmaker, zlibbioc. | | BiSeq | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, globaltest, rtracklayer, zlibbioc. | | blacksheepr | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, ComplexHeatmap, DESeq2, DEXSeq, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, biomaRt, genefilter, geneplotter, zlibbioc. | | blima | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BeadDataPackR, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, beadarray, illuminaio, limma, zlibbioc. | | BLMA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, KEGGgraph, PADOG, ROntoTools, Rgraphviz, S4Vectors, UCSC.utils, XVector, graph, limma, zlibbioc. | | BloodGen3Module | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, ComplexHeatmap, DelayedArray, ExperimentHub, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, preprocessCore, zlibbioc. | | bluster | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocNeighbors, BiocParallel, S4Vectors, assorthead. | | bnbc | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, EBImage, GenomeInfoDb, GenomicRanges, HiCBricks, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, genefilter, limma, preprocessCore, rhdf5, rhdf5filters, sva, zlibbioc. | | bnem | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, CellNOptR, GenomeInfoDb, IRanges, KEGGREST, Linnorm, MatrixGenerics, RBGL, Rgraphviz, S4Vectors, UCSC.utils, XVector, affy, affyio, annotate, edgeR, epiNEM, genefilter, graph, limma, minet, mnem, preprocessCore, sva, vsn, zlibbioc. | | BOBaFIT | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, ggbio, graph, plyranges, rtracklayer, txdbmaker, zlibbioc. | | borealis | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DSS, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicAlignments, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bsseq, limma, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, zlibbioc. | | BPRMeth | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocStyle, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | BRAIN | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | branchpointer | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, rtracklayer, zlibbioc. | | breakpointR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | brendaDb | Unclaimed | Incomplete Bioc dependencies: BiocFileCache, BiocParallel. | | BREW3R.r | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | BridgeDbR | Unclaimed | | | broadSeq | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, BiocStyle, Biostrings, ComplexHeatmap, DELocal, DESeq2, DOSE, DelayedArray, EBSeq, GOSemSim, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, NOISeq, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, clusterProfiler, edgeR, enrichplot, fgsea, genefilter, ggtree, limma, qvalue, sechm, treeio, zlibbioc. | | BrowserViz | Unclaimed | Incomplete Bioc dependencies: BiocGenerics. | | BSgenome | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | BSgenomeForge | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | bsseq | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicAlignments, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, limma, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, zlibbioc. | | BubbleTree | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, BiocStyle, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biovizBase, ensembldb, limma, rtracklayer, zlibbioc. | | BufferedMatrix | Unclaimed | | | BufferedMatrixMethods | Unclaimed | Incomplete Bioc dependencies: BufferedMatrix. | | bugsigdbr | Unclaimed | Incomplete Bioc dependencies: BiocFileCache. | | BUMHMM | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | bumphunter | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, rtracklayer, zlibbioc. | | BumpyMatrix | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, IRanges, S4Vectors. | | BUS | Unclaimed | Incomplete Bioc dependencies: minet. | | BUScorrect | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | BUSpaRse | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, ensembldb, plyranges, rtracklayer, zlibbioc. | | BUSseq | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | CaDrA | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | CAEN | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | CAFE | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, affy, affyio, annotate, biomaRt, biovizBase, ensembldb, ggbio, graph, preprocessCore, rtracklayer, txdbmaker, zlibbioc. | | CAGEfightR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicInteractions, GenomicRanges, Gviz, IRanges, InteractionSet, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, zlibbioc. | | cageminer | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, BioNERO, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, ComplexHeatmap, DelayedArray, GENIE3, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, annotate, biomaRt, biovizBase, edgeR, ensembldb, genefilter, ggbio, graph, impute, limma, minet, preprocessCore, rtracklayer, sva, txdbmaker, zlibbioc. | | CAGEr | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, CAGEfightR, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicInteractions, GenomicRanges, Gviz, IRanges, InteractionSet, KEGGREST, MatrixGenerics, MultiAssayExperiment, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, zlibbioc. | | calm | Unclaimed | | | CAMERA | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MassSpecWavelet, MatrixGenerics, MetaboCoreUtils, MsCoreUtils, MsExperiment, MsFeatures, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, RBGL, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, Spectra, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, graph, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, xcms, zlibbioc. | | CaMutQC | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, ComplexHeatmap, DNAcopy, DOSE, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, MesKit, Rhtslib, S4Vectors, UCSC.utils, XVector, clusterProfiler, enrichplot, fgsea, ggtree, maftools, qvalue, treeio, zlibbioc. | | canceR | Unclaimed | Incomplete Bioc dependencies: AnVIL, AnVILBase, AnnotationDbi, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, Category, DelayedArray, EBarrays, GSEABase, GenomeInfoDb, GenomicAlignments, GenomicDataCommons, GenomicFeatures, GenomicRanges, Heatplus, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, RBGL, RTCGAToolbox, RaggedExperiment, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TCGAutils, UCSC.utils, XVector, annotate, biomaRt, cBioPortalData, geNetClassifier, genefilter, graph, hopach, limma, minet, phenoTest, rtracklayer, zlibbioc. | | cancerclass | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | cardelino | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, ggtree, rtracklayer, snpStats, treeio, zlibbioc. | | Cardinal | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, CardinalIO, EBImage, ProtGenerics, S4Vectors, matter. | | CardinalIO | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, ProtGenerics, S4Vectors, matter. | | CARNIVAL | Unclaimed | | | casper | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, EBarrays, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, gaga, limma, rtracklayer, zlibbioc. | | CATALYST | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, ComplexHeatmap, ConsensusClusterPlus, DelayedArray, FlowSOM, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, RProtoBufLib, Rhdf5lib, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, cytolib, flowCore, scater, scuttle, zlibbioc. | | Category | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GSEABase, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, RBGL, S4Vectors, UCSC.utils, XVector, annotate, genefilter, graph, zlibbioc. | | categoryCompare | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationForge, Biobase, BiocGenerics, Biostrings, Category, GOstats, GSEABase, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, RBGL, RCy3, Rgraphviz, S4Vectors, UCSC.utils, XVector, annotate, genefilter, graph, zlibbioc. | | CatsCradle | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, DelayedArray, EBImage, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | CausalR | Unclaimed | | | cbaf | Unclaimed | Incomplete Bioc dependencies: AnVIL, AnVILBase, AnnotationDbi, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicDataCommons, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, RTCGAToolbox, RaggedExperiment, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TCGAutils, UCSC.utils, XVector, annotate, cBioPortalData, genefilter, rtracklayer, zlibbioc. | | CBEA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, BiocSet, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, TreeSummarizedExperiment, UCSC.utils, XVector, treeio, zlibbioc. | | cBioPortalData | Unclaimed | Incomplete Bioc dependencies: AnVIL, AnVILBase, AnnotationDbi, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicDataCommons, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, RTCGAToolbox, RaggedExperiment, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TCGAutils, UCSC.utils, XVector, rtracklayer, zlibbioc. | | CBNplot | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocParallel, BiocVersion, Biostrings, DOSE, ExperimentHub, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, clusterProfiler, enrichplot, fgsea, ggtree, graph, graphite, qvalue, treeio, zlibbioc. | | cbpManager | Unclaimed | Incomplete Bioc dependencies: basilisk, basilisk.utils, dir.expiry. | | ccfindR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | ccImpute | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, sparseMatrixStats, zlibbioc. | | ccmap | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | CCPlotR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, ComplexHeatmap, IRanges, S4Vectors. | | CCPROMISE | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GSEABase, GenomeInfoDb, IRanges, KEGGREST, PROMISE, S4Vectors, UCSC.utils, XVector, annotate, graph, zlibbioc. | | ccrepe | Unclaimed | | | CDI | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | celaref | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MAST, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | celda | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, limma, metapod, scater, scran, scuttle, zlibbioc. | | CellBarcode | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pwalign, zlibbioc. | | cellbaseR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, zlibbioc. | | CellBench | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | CelliD | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, fgsea, scater, scuttle, zlibbioc. | | cellity | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, graph, topGO, zlibbioc. | | CellMapper | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, S4Vectors. | | cellmigRation | Unclaimed | | | CellMixS | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, scater, scuttle, zlibbioc. | | CellNOptR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, RBGL, Rgraphviz, graph. | | cellscape | Unclaimed | | | CellScore | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | CellTrails | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | cellxgenedp | Unclaimed | | | CEMiTool | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DOSE, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, clusterProfiler, enrichplot, fgsea, ggtree, impute, preprocessCore, qvalue, treeio, zlibbioc. | | censcyt | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, ComplexHeatmap, ConsensusClusterPlus, DelayedArray, FlowSOM, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, RProtoBufLib, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, cytolib, diffcyt, edgeR, flowCore, limma, zlibbioc. | | Cepo | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GSEABase, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, graph, rhdf5, rhdf5filters, sparseMatrixStats, zlibbioc. | | ceRNAnetsim | Unclaimed | | | CeTF | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, ComplexHeatmap, DESeq2, DOSE, DelayedArray, GOSemSim, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, RCy3, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, clusterProfiler, enrichplot, fgsea, ggtree, graph, qvalue, snpStats, treeio, zlibbioc. | | CexoR | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, genomation, impute, rtracklayer, seqPattern, zlibbioc. | | CFAssay | Unclaimed | | | cfdnakit | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, CGHbase, CGHcall, DNAcopy, GenomeInfoDb, GenomicRanges, IRanges, QDNAseq, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, aroma.light, impute, limma, marray, zlibbioc. | | cfDNAPro | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, plyranges, rtracklayer, zlibbioc. | | cfTools | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, ExperimentHub, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, basilisk, basilisk.utils, dir.expiry, zlibbioc. | | CGEN | Unclaimed | | | CGHbase | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, limma, marray. | | CGHcall | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, CGHbase, DNAcopy, impute, limma, marray. | | cghMCR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, CNTools, DNAcopy, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, annotate, genefilter, limma, zlibbioc. | | CGHnormaliter | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, CGHbase, CGHcall, DNAcopy, impute, limma, marray. | | CGHregions | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, CGHbase, limma, marray. | | ChAMP | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DMRcate, DNAcopy, DelayedArray, DelayedMatrixStats, ExperimentHub, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, HDF5Array, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, ROC, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, affy, affyio, annotate, assorthead, beachmat, biomaRt, biovizBase, bsseq, bumphunter, edgeR, ensembldb, genefilter, globaltest, goseq, illuminaio, impute, limma, lumi, marray, methylumi, minfi, missMethyl, multtest, preprocessCore, qvalue, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, sva, txdbmaker, wateRmelon, zlibbioc. | | ChemmineOB | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, zlibbioc. | | ChemmineR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics. | | CHETAH | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, bioDist, zlibbioc. | | Chicago | Unclaimed | | | chihaya | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, DelayedArray, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, XVector, rhdf5, rhdf5filters, zlibbioc. | | chimeraviz | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocStyle, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rgraphviz, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, graph, rtracklayer, zlibbioc. | | ChIPanalyser | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | ChIPComp | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, rtracklayer, zlibbioc. | | chipenrich | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | ChIPexoQual | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biovizBase, ensembldb, rtracklayer, zlibbioc. | | ChIPpeakAnno | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, InteractionSet, KEGGREST, MatrixGenerics, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, ensembldb, graph, multtest, pwalign, regioneR, rtracklayer, universalmotif, zlibbioc. | | ChIPQC | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, DiffBind, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, GreyListChIP, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, apeglm, chipseq, limma, pwalign, rtracklayer, systemPipeR, zlibbioc. | | ChIPseeker | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DOSE, DelayedArray, GOSemSim, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, enrichplot, fgsea, ggtree, qvalue, rtracklayer, treeio, zlibbioc. | | chipseq | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pwalign, zlibbioc. | | ChIPseqR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, HilbertVis, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pwalign, zlibbioc. | | ChIPsim | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pwalign, zlibbioc. | | ChIPXpress | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DelayedArray, GEOquery, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affxparser, affy, affyio, frma, limma, oligo, oligoClasses, preprocessCore, zlibbioc. | | chopsticks | Unclaimed | | | chromDraw | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | ChromHeatMap | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, rtracklayer, zlibbioc. | | chromPlot | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, biomaRt, zlibbioc. | | ChromSCape | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocNeighbors, BiocParallel, BiocSingular, Biostrings, ConsensusClusterPlus, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, ResidualMatrix, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, batchelor, beachmat, bluster, edgeR, limma, metapod, rtracklayer, scater, scran, scuttle, sparseMatrixStats, zlibbioc. | | chromstaR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, bamsignals, zlibbioc. | | chromVAR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, CNEr, DelayedArray, DirichletMultinomial, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TFBSTools, UCSC.utils, XVector, annotate, pwalign, rtracklayer, seqLogo, zlibbioc. | | CHRONOS | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, RBGL, S4Vectors, UCSC.utils, XVector, biomaRt, graph, zlibbioc. | | cicero | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biocViews, biomaRt, biovizBase, ensembldb, graph, limma, monocle, rtracklayer, zlibbioc. | | CIMICE | Unclaimed | Incomplete Bioc dependencies: DNAcopy, Rhtslib, maftools, zlibbioc. | | CINdex | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | circRNAprofiler | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, edgeR, gwascat, limma, rtracklayer, snpStats, universalmotif, zlibbioc. | | CircSeqAlignTk | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rbowtie2, Rhisat2, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SGSeq, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, pwalign, rtracklayer, txdbmaker, zlibbioc. | | cisPath | Unclaimed | | | CiteFuse | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, limma, metapod, rhdf5, rhdf5filters, scran, scuttle, zlibbioc. | | ClassifyR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, dcanr, genefilter, zlibbioc. | | cleanUpdTSeq | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | CleanUpRNAseq | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, Rsubread, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, ensembldb, genefilter, limma, qsmooth, rtracklayer, sva, tximport, zlibbioc. | | cleaver | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | clevRvis | Unclaimed | | | clippda | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, limma. | | clipper | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, KEGGgraph, MatrixGenerics, Rgraphviz, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, graph, qpgraph, rtracklayer, zlibbioc. | | cliProfiler | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | cliqueMS | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MassSpecWavelet, MatrixGenerics, MetaboCoreUtils, MsCoreUtils, MsExperiment, MsFeatures, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, Spectra, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, xcms, zlibbioc. | | Clomial | Unclaimed | | | clst | Unclaimed | Incomplete Bioc dependencies: ROC. | | clstutils | Unclaimed | Incomplete Bioc dependencies: ROC, clst. | | CluMSID | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, zlibbioc. | | ClustAll | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, ComplexHeatmap, IRanges, S4Vectors. | | clustComp | Unclaimed | | | clusterExperiment | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, BiocSingular, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, assorthead, beachmat, edgeR, genefilter, limma, mbkmeans, rhdf5, rhdf5filters, zinbwave, zlibbioc. | | ClusterFoldSimilarity | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | ClusterJudge | Unclaimed | | | clusterProfiler | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DOSE, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, enrichplot, fgsea, ggtree, qvalue, treeio, zlibbioc. | | clusterSeq | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, baySeq, edgeR, limma, zlibbioc. | | ClusterSignificance | Unclaimed | | | clusterStab | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | clustifyr | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, fgsea, zlibbioc. | | ClustIRR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, pwalign, zlibbioc. | | CMA | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | cmapR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, RProtoBufLib, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, cytolib, flowCore, rhdf5, rhdf5filters, zlibbioc. | | cn.farms | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DNAcopy, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affxparser, affyio, oligo, oligoClasses, preprocessCore, zlibbioc. | | cn.mops | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, zlibbioc. | | CNAnorm | Unclaimed | Incomplete Bioc dependencies: DNAcopy. | | CNEr | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, pwalign, rtracklayer, zlibbioc. | | CNORdt | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, CellNOptR, RBGL, Rgraphviz, graph. | | CNORfeeder | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, CellNOptR, RBGL, Rgraphviz, graph. | | CNORfuzzy | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, CellNOptR, RBGL, Rgraphviz, graph. | | CNORode | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, CellNOptR, RBGL, Rgraphviz, graph. | | CNTools | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, annotate, genefilter, zlibbioc. | | CNVfilteR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, CopyNumberPlots, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, bamsignals, biovizBase, cn.mops, ensembldb, karyoploteR, regioneR, rhdf5, rhdf5filters, rtracklayer, zlibbioc. | | cnvGSA | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | CNViz | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, CopyNumberPlots, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, bamsignals, biovizBase, cn.mops, ensembldb, karyoploteR, regioneR, rhdf5, rhdf5filters, rtracklayer, zlibbioc. | | CNVMetrics | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | CNVPanelizer | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, NOISeq, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, zlibbioc. | | CNVRanger | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GDSArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, RaggedExperiment, S4Arrays, S4Vectors, SNPRelate, SeqArray, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, gdsfmt, limma, zlibbioc. | | CNVrd2 | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DNAcopy, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | CoCiteStats | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | COCOA | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, ComplexHeatmap, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicAlignments, GenomicRanges, HDF5Array, IRanges, MIRA, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bsseq, limma, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, zlibbioc. | | codelink | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, limma, zlibbioc. | | CODEX | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | CoGAPS | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, fgsea, rhdf5, rhdf5filters, zlibbioc. | | cogena | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | cogeqc | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, ggtree, treeio, zlibbioc. | | Cogito | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | coGPS | Unclaimed | | | cola | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, ComplexHeatmap, IRanges, S4Vectors, impute. | | comapr | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, zlibbioc. | | combi | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomformat, limma, multtest, phyloseq, rhdf5, rhdf5filters, zlibbioc. | | coMethDMR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, ExperimentHub, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, bumphunter, limma, rtracklayer, zlibbioc. | | COMPASS | Unclaimed | Incomplete Bioc dependencies: BiocStyle. | | compcodeR | Unclaimed | Incomplete Bioc dependencies: edgeR, limma. | | compEpiTools | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, graph, limma, marray, methylPipe, rtracklayer, topGO, zlibbioc. | | ComplexHeatmap | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, IRanges, S4Vectors. | | CompoundDb | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocGenerics, BiocParallel, ChemmineR, GenomeInfoDb, GenomicRanges, IRanges, MetaboCoreUtils, MsCoreUtils, ProtGenerics, S4Vectors, Spectra, UCSC.utils, XVector, zlibbioc. | | ComPrAn | Unclaimed | | | compSPOT | Unclaimed | | | concordexR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocNeighbors, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, assorthead, bluster, sparseMatrixStats, zlibbioc. | | condiments | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, TrajectoryUtils, UCSC.utils, XVector, assorthead, beachmat, distinct, limma, scater, scuttle, slingshot, zlibbioc. | | CONFESS | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, EBImage, RProtoBufLib, Rgraphviz, Rhdf5lib, S4Vectors, SamSPECTRAL, cytolib, flowClust, flowCore, flowMeans, flowMerge, flowPeaks, graph, limma. | | consensus | Unclaimed | | | ConsensusClusterPlus | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | consensusDE | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, EDASeq, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, RUVSeq, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, aroma.light, biomaRt, edgeR, ensembldb, limma, pcaMethods, pwalign, rtracklayer, zlibbioc. | | consensusSeekeR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | consICA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, graph, topGO, zlibbioc. | | CONSTANd | Unclaimed | | | conumee | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DNAcopy, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, bumphunter, genefilter, illuminaio, limma, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | convert | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, limma, marray. | | copa | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | CopyNumberPlots | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, bamsignals, biovizBase, cn.mops, ensembldb, karyoploteR, regioneR, rhdf5, rhdf5filters, rtracklayer, zlibbioc. | | coRdon | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | CoreGx | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, BumpyMatrix, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, fgsea, limma, marray, piano, zlibbioc. | | Cormotif | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, affy, affyio, limma, preprocessCore, zlibbioc. | | corral | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | coseq | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, HTSFilter, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | CoSIA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, ExperimentHub, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotationTools, biomaRt, zlibbioc. | | cosmiq | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MassSpecWavelet, MatrixGenerics, MetaboCoreUtils, MsCoreUtils, MsExperiment, MsFeatures, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, Spectra, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, xcms, zlibbioc. | | cosmosR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, CARNIVAL, GSEABase, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, decoupleR, graph, zlibbioc. | | COSNet | Unclaimed | | | COTAN | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, BiocSingular, ComplexHeatmap, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, PCAtools, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, sparseMatrixStats, zlibbioc. | | countsimQC | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, genefilter, limma, zlibbioc. | | covEB | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | CoverageView | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | covRNA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, annotate, genefilter, zlibbioc. | | cpvSNP | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GSEABase, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, graph, rtracklayer, zlibbioc. | | cqn | Unclaimed | | | CRImage | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DNAcopy, EBImage, aCGH, multtest. | | CRISPRball | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocParallel, BiocSingular, BiocVersion, Biostrings, ComplexHeatmap, DOSE, DelayedArray, DelayedMatrixStats, ExperimentHub, GOSemSim, GenomeInfoDb, GenomicRanges, IRanges, InteractiveComplexHeatmap, KEGGREST, KEGGgraph, MAGeCKFlute, MatrixGenerics, PCAtools, Rgraphviz, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, clusterProfiler, dittoSeq, enrichplot, fgsea, ggtree, graph, pathview, qvalue, sparseMatrixStats, treeio, zlibbioc. | | crisprBase | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | crisprBowtie | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rbowtie, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, crisprBase, rtracklayer, zlibbioc. | | crisprBwa | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rbwa, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, crisprBase, rtracklayer, zlibbioc. | | crisprDesign | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, ExperimentHub, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rbowtie, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, basilisk, basilisk.utils, biomaRt, crisprBase, crisprBowtie, crisprScore, dir.expiry, rtracklayer, txdbmaker, zlibbioc. | | crisprScore | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, ExperimentHub, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, basilisk, basilisk.utils, dir.expiry, zlibbioc. | | CRISPRseek | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rhdf5, rhdf5filters, rtracklayer, zlibbioc. | | crisprShiny | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, ExperimentHub, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rbowtie, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, basilisk, basilisk.utils, biomaRt, biovizBase, crisprBase, crisprBowtie, crisprDesign, crisprScore, crisprViz, dir.expiry, ensembldb, pwalign, rtracklayer, txdbmaker, zlibbioc. | | CrispRVariants | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | crisprVerse | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, ExperimentHub, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rbowtie, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, basilisk, basilisk.utils, biomaRt, biovizBase, crisprBase, crisprBowtie, crisprDesign, crisprScore, crisprViz, dir.expiry, ensembldb, rtracklayer, txdbmaker, zlibbioc. | | crisprViz | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, ExperimentHub, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rbowtie, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, basilisk, basilisk.utils, biomaRt, biovizBase, crisprBase, crisprBowtie, crisprDesign, crisprScore, dir.expiry, ensembldb, rtracklayer, txdbmaker, zlibbioc. | | crlmm | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affyio, illuminaio, limma, oligoClasses, preprocessCore, zlibbioc. | | CSAR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | csaw | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, metapod, zlibbioc. | | csdR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, impute, preprocessCore, zlibbioc. | | CSSQ | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | ctc | Unclaimed | | | CTdata | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, ExperimentHub, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | CTDquerier | Unclaimed | Incomplete Bioc dependencies: BiocFileCache, BiocGenerics, S4Vectors. | | CTexploreR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, CTdata, ComplexHeatmap, DelayedArray, ExperimentHub, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | cTRAP | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocParallel, BiocVersion, Biostrings, GenomeInfoDb, IRanges, KEGGREST, Rhdf5lib, S4Vectors, UCSC.utils, XVector, fgsea, limma, rhdf5, rhdf5filters, zlibbioc. | | ctsGE | Unclaimed | Incomplete Bioc dependencies: limma. | | CTSV | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, qvalue, zlibbioc. | | cummeRbund | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, zlibbioc. | | CuratedAtlasQueryR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rhdf5, rhdf5filters, zlibbioc. | | customCMPdb | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, ChemmineR, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | customProDB | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, rtracklayer, txdbmaker, zlibbioc. | | cyanoFilter | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowClust, flowCore, flowDensity, flowViz, graph. | | cycle | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DynDoc, Mfuzz, tkWidgets, widgetTools. | | cydar | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, RProtoBufLib, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, cytolib, flowCore, zlibbioc. | | cypress | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, EpiDISH, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, PROPER, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TOAST, UCSC.utils, XVector, edgeR, limma, preprocessCore, zlibbioc. | | CytoDx | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | cytofQC | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, BiocStyle, CATALYST, ComplexHeatmap, ConsensusClusterPlus, DelayedArray, FlowSOM, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, RProtoBufLib, Rhdf5lib, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, cytolib, flowCore, scater, scuttle, zlibbioc. | | CytoGLMM | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | cytoKernel | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | cytolib | Unclaimed | Incomplete Bioc dependencies: RProtoBufLib, Rhdf5lib. | | cytomapper | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocParallel, DelayedArray, EBImage, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, rhdf5, rhdf5filters, zlibbioc. | | CytoMDS | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocParallel, ComplexHeatmap, CytoPipeline, DelayedArray, IRanges, MatrixGenerics, PeacoQC, RBGL, RProtoBufLib, Rgraphviz, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, XVector, cytolib, flowAI, flowCore, flowWorkspace, ggcyto, graph, ncdfFlow, zlibbioc. | | cytoMEM | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | CytoML | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, IRanges, MatrixGenerics, RBGL, RProtoBufLib, Rgraphviz, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, XVector, cytolib, flowClust, flowCore, flowViz, flowWorkspace, ggcyto, graph, ncdfFlow, openCyto, zlibbioc. | | CytoPipeline | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocParallel, ComplexHeatmap, DelayedArray, IRanges, MatrixGenerics, PeacoQC, RBGL, RProtoBufLib, Rgraphviz, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, XVector, cytolib, flowAI, flowCore, flowWorkspace, ggcyto, graph, ncdfFlow, zlibbioc. | | CytoPipelineGUI | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocParallel, ComplexHeatmap, CytoPipeline, DelayedArray, IRanges, MatrixGenerics, PeacoQC, RBGL, RProtoBufLib, Rgraphviz, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, XVector, cytolib, flowAI, flowCore, flowWorkspace, ggcyto, graph, ncdfFlow, zlibbioc. | | cytoviewer | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocParallel, DelayedArray, EBImage, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, cytomapper, rhdf5, rhdf5filters, zlibbioc. | | dada2 | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pwalign, zlibbioc. | | dagLogo | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, CNEr, DelayedArray, DirichletMultinomial, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TFBSTools, UCSC.utils, UniProt.ws, XVector, annotate, biomaRt, motifStack, pwalign, rtracklayer, seqLogo, zlibbioc. | | daMA | Unclaimed | | | DAMEfinder | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, bumphunter, limma, rtracklayer, zlibbioc. | | DaMiRseq | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, EDASeq, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, aroma.light, biomaRt, edgeR, genefilter, limma, pwalign, rtracklayer, sva, zlibbioc. | | Damsel | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, Rsubread, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, edgeR, ensembldb, ggbio, goseq, graph, limma, plyranges, rtracklayer, txdbmaker, zlibbioc. | | DAPAR | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, zlibbioc. | | dar | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, Biostrings, ComplexHeatmap, DECIPHER, DelayedArray, DelayedMatrixStats, DirichletMultinomial, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, Rhdf5lib, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, TreeSummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, biomformat, bluster, decontam, mia, multtest, phyloseq, rhdf5, rhdf5filters, scater, scuttle, sparseMatrixStats, treeio, zlibbioc. | | DART | Unclaimed | | | dcanr | Unclaimed | | | DCATS | Unclaimed | | | dce | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, Linnorm, RBGL, Rgraphviz, S4Vectors, UCSC.utils, XVector, edgeR, epiNEM, graph, graphite, limma, minet, mnem, multtest, zlibbioc. | | dcGSA | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | ddCt | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | ddPCRclust | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, SamSPECTRAL, cytolib, flowCore, flowDensity, flowPeaks, flowViz. | | dearseq | Unclaimed | | | debCAM | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | debrowser | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DESeq2, DOSE, DelayedArray, GOSemSim, GenomeInfoDb, GenomicRanges, Harman, IRanges, KEGGREST, KEGGgraph, MatrixGenerics, Rgraphviz, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, apeglm, clusterProfiler, edgeR, enrichplot, fgsea, genefilter, ggtree, graph, limma, pathview, qvalue, sva, treeio, zlibbioc. | | DECIPHER | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | decompTumor2Sig | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | DeconRNASeq | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, pcaMethods. | | decontam | Unclaimed | | | decontX | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, celda, edgeR, limma, metapod, scater, scran, scuttle, zlibbioc. | | deconvR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, bumphunter, fastseg, genefilter, illuminaio, limma, methylKit, minfi, multtest, preprocessCore, qvalue, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | decoupleR | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | DeepPINCS | Unclaimed | Incomplete Bioc dependencies: ttgsea. | | deepSNV | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | DeepTarget | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocParallel, BiocVersion, Biostrings, ExperimentHub, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, fgsea, zlibbioc. | | DEFormats | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | DegCre | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, InteractionSet, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, plotgardener, plyranges, qvalue, rhdf5, rhdf5filters, rtracklayer, zlibbioc. | | DegNorm | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, rtracklayer, txdbmaker, zlibbioc. | | DEGraph | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, KEGGgraph, NCIgraph, RBGL, RCy3, Rgraphviz, graph. | | DEGreport | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, ComplexHeatmap, ConsensusClusterPlus, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | DEGseq | Unclaimed | Incomplete Bioc dependencies: qvalue. | | DelayedArray | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, XVector, zlibbioc. | | DelayedDataFrame | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, DelayedArray, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, XVector, zlibbioc. | | DelayedMatrixStats | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, DelayedArray, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, XVector, sparseMatrixStats, zlibbioc. | | DelayedRandomArray | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, DelayedArray, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, XVector, zlibbioc. | | DelayedTensor | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, BiocSingular, DelayedArray, DelayedRandomArray, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, ScaledMatrix, SparseArray, XVector, assorthead, beachmat, rhdf5, rhdf5filters, zlibbioc. | | DELocal | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, zlibbioc. | | deltaCaptureC | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | deltaGseg | Unclaimed | | | DeMAND | Unclaimed | | | DeMixT | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DSS, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicAlignments, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, assorthead, beachmat, bsseq, edgeR, genefilter, limma, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, sva, zlibbioc. | | demuxmix | Unclaimed | | | demuxSNP | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, demuxmix, ensembldb, rtracklayer, zlibbioc. | | densvis | Unclaimed | Incomplete Bioc dependencies: basilisk, basilisk.utils, dir.expiry. | | DEP | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, zlibbioc. | | DepecheR | Unclaimed | Incomplete Bioc dependencies: BiocParallel, mixOmics. | | DepInfeR | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | DEqMS | Unclaimed | Incomplete Bioc dependencies: limma. | | derfinder | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, bumphunter, derfinderHelper, limma, qvalue, rtracklayer, zlibbioc. | | derfinderHelper | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, IRanges, S4Vectors. | | derfinderPlot | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, bumphunter, derfinder, derfinderHelper, ensembldb, ggbio, graph, limma, qvalue, rtracklayer, txdbmaker, zlibbioc. | | DEScan2 | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, ChIPpeakAnno, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, InteractionSet, KEGGREST, MatrixGenerics, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, ensembldb, graph, multtest, pwalign, regioneR, rtracklayer, universalmotif, zlibbioc. | | DESeq2 | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | DEsingle | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | DESpace | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | destiny | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pcaMethods, zlibbioc. | | DEsubs | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, EBSeq, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, RBGL, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, graph, limma, qvalue, zlibbioc. | | DEWSeq | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | DExMA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GEOquery, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, genefilter, impute, limma, snpStats, sva, zlibbioc. | | DEXSeq | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, biomaRt, genefilter, geneplotter, zlibbioc. | | DFP | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | DFplyr | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, S4Vectors. | | DiffBind | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, GreyListChIP, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, apeglm, limma, pwalign, rtracklayer, systemPipeR, zlibbioc. | | diffcoexp | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, impute, multtest, pcaMethods, preprocessCore, zlibbioc. | | diffcyt | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ComplexHeatmap, ConsensusClusterPlus, DelayedArray, FlowSOM, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, RProtoBufLib, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, cytolib, edgeR, flowCore, limma, zlibbioc. | | DifferentialRegulation | Unclaimed | Incomplete Bioc dependencies: BANDITS, Biobase, BiocGenerics, BiocParallel, DRIMSeq, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, tximport, zlibbioc. | | diffGeneAnalysis | Unclaimed | | | diffHic | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, InteractionSet, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, csaw, edgeR, limma, metapod, rhdf5, rhdf5filters, rtracklayer, zlibbioc. | | DiffLogo | Unclaimed | | | diffuStats | Unclaimed | | | diffUTR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, ComplexHeatmap, DESeq2, DEXSeq, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, Rsubread, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, biomaRt, edgeR, ensembldb, genefilter, geneplotter, limma, rtracklayer, zlibbioc. | | diggit | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, viper. | | Dino | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, limma, metapod, scran, scuttle, zlibbioc. | | dinoR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | dir.expiry | Unclaimed | | | Director | Unclaimed | | | DirichletMultinomial | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, IRanges, S4Vectors. | | discordant | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | DiscoRhythm | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocStyle, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | distinct | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, limma, scater, scuttle, zlibbioc. | | dittoSeq | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | divergence | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | dks | Unclaimed | | | DMCFB | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | DMCHMM | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | DMRcaller | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | DMRcate | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, DelayedMatrixStats, ExperimentHub, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, HDF5Array, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, annotate, assorthead, beachmat, biomaRt, biovizBase, bsseq, bumphunter, edgeR, ensembldb, genefilter, illuminaio, limma, methylumi, minfi, missMethyl, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | DMRScan | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | dmrseq | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotatr, assorthead, beachmat, bsseq, bumphunter, limma, regioneR, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, zlibbioc. | | DNABarcodeCompatibility | Unclaimed | | | DNABarcodes | Unclaimed | | | DNAcopy | Unclaimed | | | DNAfusion | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocBaseUtils, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, bamsignals, rtracklayer, zlibbioc. | | DNAshapeR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | DominoEffect | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, pwalign, rtracklayer, zlibbioc. | | dominoSignal | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, ComplexHeatmap, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, biomaRt, zlibbioc. | | doppelgangR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, genefilter, impute, limma, sva, zlibbioc. | | Doscheda | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, affy, affyio, limma, preprocessCore, vsn, zlibbioc. | | DOSE | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, fgsea, qvalue, zlibbioc. | | doseR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | doubletrouble | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MSA2dist, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pwalign, rtracklayer, syntenet, zlibbioc. | | drawProteins | Unclaimed | | | dreamlet | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, EnrichmentBrowser, GSEABase, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, KEGGgraph, MatrixGenerics, Rgraphviz, S4Arrays, S4Vectors, SPIA, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, assorthead, beachmat, edgeR, graph, graphite, limma, pathview, safe, sparseMatrixStats, variancePartition, zenith, zlibbioc. | | DRIMSeq | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | DriverNet | Unclaimed | | | DropletUtils | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, edgeR, limma, rhdf5, rhdf5filters, scuttle, sparseMatrixStats, zlibbioc. | | drugTargetInteractions | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, UniProt.ws, XVector, biomaRt, ensembldb, rtracklayer, zlibbioc. | | DrugVsDisease | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, ArrayExpress, Biobase, BiocFileCache, BiocGenerics, Biostrings, DelayedArray, GEOquery, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affxparser, affy, affyio, annotate, biomaRt, limma, oligo, oligoClasses, preprocessCore, qvalue, zlibbioc. | | DSS | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicAlignments, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bsseq, limma, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, zlibbioc. | | dStruct | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, IRanges, S4Vectors. | | DTA | Unclaimed | | | Dune | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | DuplexDiscovereR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, InteractionSet, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, zlibbioc. | | dupRadar | Unclaimed | Incomplete Bioc dependencies: Rsubread. | | dyebias | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, limma, marray. | | DynDoc | Unclaimed | | | easier | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocParallel, BiocVersion, Biostrings, DESeq2, DelayedArray, ExperimentHub, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, decoupleR, preprocessCore, progeny, quantiseqr, zlibbioc. | | EasyCellType | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, BiocStyle, Biostrings, DOSE, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, clusterProfiler, enrichplot, fgsea, ggtree, qvalue, treeio, zlibbioc. | | easylift | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | easyreporting | Unclaimed | | | easyRNASeq | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, edgeR, genomeIntervals, limma, pwalign, zlibbioc. | | EBarrays | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | EBcoexpress | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, EBarrays. | | EBImage | Unclaimed | Incomplete Bioc dependencies: BiocGenerics. | | EBSEA | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, EmpiricalBrownsMethod, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | EBSeq | Unclaimed | | | ecolitk | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | EDASeq | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, aroma.light, biomaRt, pwalign, rtracklayer, zlibbioc. | | edge | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, annotate, edgeR, genefilter, limma, qvalue, sva, zlibbioc. | | edgeR | Unclaimed | Incomplete Bioc dependencies: limma. | | EDIRquery | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, InteractionSet, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | eds | Unclaimed | | | EGAD | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GEOquery, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, impute, limma, zlibbioc. | | EGSEA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocParallel, BiocSingular, Biostrings, DelayedArray, DelayedMatrixStats, GSEABase, GSVA, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, KEGGREST, KEGGgraph, MatrixGenerics, PADOG, Rgraphviz, Rhdf5lib, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, annotate, assorthead, beachmat, edgeR, gage, globaltest, graph, limma, multtest, pathview, rhdf5, rhdf5filters, safe, sparseMatrixStats, topGO, zlibbioc. | | eiR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, ChemmineR. | | eisaR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | ELMER | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TCGAbiolinks, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, zlibbioc. | | EMDomics | Unclaimed | Incomplete Bioc dependencies: BiocParallel, preprocessCore. | | EmpiricalBrownsMethod | Unclaimed | | | EnhancedVolcano | Unclaimed | | | enhancerHomologSearch | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, CNEr, DelayedArray, DirichletMultinomial, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TFBSTools, UCSC.utils, XVector, annotate, motifmatchr, pwalign, rtracklayer, seqLogo, zlibbioc. | | EnMCB | Unclaimed | Incomplete Bioc dependencies: BiocFileCache. | | ENmix | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, DelayedMatrixStats, ExperimentHub, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, bumphunter, genefilter, geneplotter, illuminaio, impute, limma, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | EnrichDO | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DOSE, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, Rgraphviz, S4Vectors, UCSC.utils, XVector, clusterProfiler, enrichplot, fgsea, ggtree, graph, qvalue, treeio, zlibbioc. | | EnrichedHeatmap | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, ComplexHeatmap, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | EnrichmentBrowser | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, DelayedArray, GSEABase, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, KEGGgraph, MatrixGenerics, Rgraphviz, S4Arrays, S4Vectors, SPIA, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, graph, graphite, limma, pathview, safe, zlibbioc. | | enrichplot | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DOSE, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, fgsea, ggtree, qvalue, treeio, zlibbioc. | | enrichViewNet | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DOSE, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, RCy3, S4Vectors, UCSC.utils, XVector, enrichplot, fgsea, ggtree, graph, qvalue, treeio, zlibbioc. | | ensembldb | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | epialleleR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, Rhtslib, S4Vectors, UCSC.utils, XVector, zlibbioc. | | EpiCompare | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, ChIPseeker, DOSE, DelayedArray, GOSemSim, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, enrichplot, fgsea, genomation, ggtree, impute, qvalue, rtracklayer, seqPattern, treeio, zlibbioc. | | epidecodeR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | EpiDISH | Unclaimed | | | epigenomix | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BeadDataPackR, Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, beadarray, illuminaio, limma, zlibbioc. | | epigraHMM | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, GreyListChIP, IRanges, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, bamsignals, csaw, edgeR, limma, metapod, rhdf5, rhdf5filters, rtracklayer, zlibbioc. | | EpiMix | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, ExperimentHub, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, impute, limma, rtracklayer, zlibbioc. | | epimutacions | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, DelayedMatrixStats, ExperimentHub, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, HDF5Array, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, annotate, biomaRt, biovizBase, bumphunter, ensembldb, genefilter, graph, illuminaio, limma, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, txdbmaker, zlibbioc. | | epiNEM | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Linnorm, RBGL, Rgraphviz, graph, limma, minet, mnem. | | EpipwR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, ExperimentHub, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | epiregulon | Unclaimed | Incomplete Bioc dependencies: AUCell, AnnotationDbi, AnnotationHub, BSgenome, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocIO, BiocNeighbors, BiocParallel, BiocSingular, BiocVersion, Biostrings, CNEr, DelayedArray, DelayedMatrixStats, DirichletMultinomial, ExperimentHub, GSEABase, GenomeInfoDb, GenomicAlignments, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, TFBSTools, UCSC.utils, XVector, alabaster.base, alabaster.matrix, alabaster.schemas, annotate, assorthead, beachmat, bluster, edgeR, graph, limma, metapod, motifmatchr, pwalign, rhdf5, rhdf5filters, rtracklayer, scran, scuttle, seqLogo, sparseMatrixStats, zlibbioc. | | epiregulon.extra | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, Biostrings, ComplexHeatmap, DOSE, DelayedArray, GOSemSim, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, clusterProfiler, edgeR, enrichplot, fgsea, ggtree, limma, metapod, qvalue, scater, scran, scuttle, treeio, zlibbioc. | | epistack | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | epistasisGA | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | EpiTxDb | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Modstrings, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, Structstrings, SummarizedExperiment, UCSC.utils, XVector, biomaRt, rtracklayer, tRNA, tRNAdbImport, txdbmaker, zlibbioc. | | epivizr | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, bumphunter, ensembldb, epivizrData, epivizrServer, graph, limma, rtracklayer, txdbmaker, zlibbioc. | | epivizrChart | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, ensembldb, epivizrData, epivizrServer, graph, rtracklayer, txdbmaker, zlibbioc. | | epivizrData | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, ensembldb, epivizrServer, graph, rtracklayer, txdbmaker, zlibbioc. | | epivizrServer | Unclaimed | | | epivizrStandalone | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, bumphunter, ensembldb, epivizr, epivizrData, epivizrServer, graph, limma, rtracklayer, txdbmaker, zlibbioc. | | erccdashboard | Unclaimed | Incomplete Bioc dependencies: edgeR, limma, qvalue. | | erma | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, graph, rtracklayer, txdbmaker, zlibbioc. | | ERSSA | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, apeglm, edgeR, limma, zlibbioc. | | esATAC | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, CNEr, ChIPseeker, DOSE, DelayedArray, DirichletMultinomial, GOSemSim, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rbowtie2, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, TFBSTools, UCSC.utils, XVector, annotate, clusterProfiler, enrichplot, fgsea, ggtree, motifmatchr, pipeFrame, pwalign, qvalue, rtracklayer, seqLogo, treeio, zlibbioc. | | escape | Unclaimed | Incomplete Bioc dependencies: AUCell, AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, Biostrings, DelayedArray, DelayedMatrixStats, GSEABase, GSVA, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, UCell, XVector, annotate, assorthead, beachmat, graph, rhdf5, rhdf5filters, sparseMatrixStats, zlibbioc. | | escheR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | esetVis | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, MLP, S4Vectors, UCSC.utils, XVector, zlibbioc. | | eudysbiome | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, zlibbioc. | | evaluomeR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | EventPointer | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, RBGL, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SGSeq, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affxparser, fgsea, graph, limma, qvalue, rhdf5, rhdf5filters, rtracklayer, tximport, zlibbioc. | | EWCE | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocParallel, BiocVersion, Biostrings, DelayedArray, ExperimentHub, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, ggtree, limma, orthogene, treeio, zlibbioc. | | ExCluster | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, Rsubread, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | ExiMiR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, affy, affyio, limma, preprocessCore, zlibbioc. | | ExperimentHub | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | ExperimentHubData | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationForge, AnnotationHub, AnnotationHubData, Biobase, BiocBaseUtils, BiocCheck, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, ExperimentHub, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biocViews, biomaRt, graph, rtracklayer, txdbmaker, zlibbioc. | | ExperimentSubset | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, TreeSummarizedExperiment, UCSC.utils, XVector, treeio, zlibbioc. | | ExploreModelMatrix | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, S4Vectors, limma. | | ExpressionAtlas | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocStyle, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, zlibbioc. | | extraChIPs | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicInteractions, GenomicRanges, Gviz, IRanges, InteractionSet, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, csaw, edgeR, ensembldb, limma, metapod, rtracklayer, zlibbioc. | | fabia | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | factDesign | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | factR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, drawProteins, rtracklayer, wiggleplotr, zlibbioc. | | faers | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | FamAgg | Unclaimed | Incomplete Bioc dependencies: BiocGenerics. | | famat | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DOSE, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, clusterProfiler, enrichplot, fgsea, ggtree, qvalue, rWikiPathways, treeio, zlibbioc. | | fastLiquidAssociation | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, LiquidAssociation, S4Vectors, UCSC.utils, XVector, impute, preprocessCore, zlibbioc. | | FastqCleaner | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pwalign, zlibbioc. | | fastreeR | Unclaimed | | | fastseg | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | fCCAC | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, genomation, impute, rtracklayer, seqPattern, zlibbioc. | | fCI | Unclaimed | | | fcScan | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | fdrame | Unclaimed | | | FEAST | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SC3, SingleCellExperiment, SparseArray, SummarizedExperiment, TSCAN, TrajectoryUtils, UCSC.utils, XVector, zlibbioc. | | FeatSeekR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | fedup | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, RCy3, graph. | | FELLA | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | fenr | Unclaimed | Incomplete Bioc dependencies: BiocFileCache. | | ffpe | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, annotate, bumphunter, genefilter, illuminaio, limma, lumi, methylumi, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | fgga | Unclaimed | Incomplete Bioc dependencies: BiocFileCache, BiocGenerics, RBGL, graph. | | FGNet | Unclaimed | | | fgsea | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | FilterFFPE | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, zlibbioc. | | findIPs | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | FindIT2 | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocBaseUtils, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, qvalue, rtracklayer, zlibbioc. | | FISHalyseR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, EBImage. | | fishpond | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, qvalue, zlibbioc. | | FitHiC | Unclaimed | | | flagme | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, CAMERA, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MassSpecWavelet, MatrixGenerics, MetaboCoreUtils, MsCoreUtils, MsExperiment, MsFeatures, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, RBGL, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, Spectra, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, graph, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, xcms, zlibbioc. | | FLAMES | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocNeighbors, BiocParallel, BiocSingular, Biostrings, ComplexHeatmap, DelayedArray, DelayedMatrixStats, DropletUtils, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, assorthead, bambu, basilisk, basilisk.utils, beachmat, biomaRt, biovizBase, bluster, dir.expiry, edgeR, ensembldb, ggbio, graph, limma, metapod, rhdf5, rhdf5filters, rtracklayer, scater, scran, scuttle, sparseMatrixStats, txdbmaker, zlibbioc. | | flowAI | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | flowBeads | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | flowBin | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore, flowFP, flowViz, limma. | | flowcatchR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, EBImage. | | flowCHIC | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, EBImage, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | flowClean | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | flowClust | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore, graph. | | flowCore | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib. | | flowCut | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore, flowDensity, flowViz. | | flowCyBar | Unclaimed | | | flowDensity | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore, flowViz. | | flowFP | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore, flowViz. | | flowGate | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, IRanges, MatrixGenerics, RBGL, RProtoBufLib, Rgraphviz, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, XVector, cytolib, flowCore, flowWorkspace, ggcyto, graph, ncdfFlow, zlibbioc. | | flowGraph | Unclaimed | | | flowMatch | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | flowMeans | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | flowMerge | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rgraphviz, Rhdf5lib, S4Vectors, cytolib, flowClust, flowCore, graph. | | flowPeaks | Unclaimed | | | flowPloidy | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | flowPlots | Unclaimed | | | FlowSOM | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ConsensusClusterPlus, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | flowSpecs | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | flowStats | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, IRanges, MatrixGenerics, RBGL, RProtoBufLib, Rgraphviz, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, XVector, cytolib, flowCore, flowViz, flowWorkspace, graph, ncdfFlow, zlibbioc. | | flowTime | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | flowTrans | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowClust, flowCore, flowViz, graph. | | flowViz | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | flowVS | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, IRanges, MatrixGenerics, RBGL, RProtoBufLib, Rgraphviz, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, XVector, cytolib, flowCore, flowStats, flowViz, flowWorkspace, graph, ncdfFlow, zlibbioc. | | flowWorkspace | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, IRanges, MatrixGenerics, RBGL, RProtoBufLib, Rgraphviz, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, XVector, cytolib, flowCore, graph, ncdfFlow, zlibbioc. | | fmcsR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, ChemmineR. | | fmrs | Unclaimed | | | fobitools | Unclaimed | Incomplete Bioc dependencies: BiocParallel, fgsea. | | FRASER | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, OUTRIDER, Rhdf5lib, Rhtslib, Rsamtools, Rsubread, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, pcaMethods, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, txdbmaker, zlibbioc. | | frenchFISH | Unclaimed | | | FRGEpistasis | Unclaimed | | | frma | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affxparser, affy, affyio, oligo, oligoClasses, preprocessCore, zlibbioc. | | frmaTools | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, affy, affyio, preprocessCore, zlibbioc. | | funOmics | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, pathifier, zlibbioc. | | funtooNorm | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, bumphunter, genefilter, illuminaio, limma, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | FuseSOM | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | GA4GHclient | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | GA4GHshiny | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GA4GHclient, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | gaga | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, EBarrays. | | gage | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, graph, zlibbioc. | | GAprediction | Unclaimed | | | garfield | Unclaimed | | | GARS | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DaMiRseq, DelayedArray, EDASeq, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MLSeq, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, aroma.light, biomaRt, edgeR, genefilter, limma, pwalign, rtracklayer, sSeq, sva, zlibbioc. | | GateFinder | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore, flowFP, flowViz. | | gatom | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BioNet, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, RBGL, S4Vectors, UCSC.utils, XVector, graph, zlibbioc. | | GBScleanR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, SeqArray, UCSC.utils, XVector, gdsfmt, zlibbioc. | | gcapc | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | gcatest | Unclaimed | Incomplete Bioc dependencies: lfa. | | gCrisprTools | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, zlibbioc. | | gcrma | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, affy, affyio, preprocessCore, zlibbioc. | | GDCRNATools | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, DESeq2, DOSE, DelayedArray, GOSemSim, GenomeInfoDb, GenomicDataCommons, GenomicRanges, IRanges, KEGGREST, KEGGgraph, MatrixGenerics, Rgraphviz, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, clusterProfiler, edgeR, enrichplot, fgsea, ggtree, graph, limma, pathview, qvalue, treeio, zlibbioc. | | gDNAx | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | gDR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, BumpyMatrix, CoreGx, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, PharmacoGx, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, fgsea, gDRcore, gDRimport, gDRutils, limma, marray, piano, zlibbioc. | | gDRcore | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, BumpyMatrix, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, gDRutils, zlibbioc. | | gDRimport | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, BumpyMatrix, CoreGx, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, PharmacoGx, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, fgsea, gDRutils, limma, marray, piano, zlibbioc. | | gDRstyle | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocCheck, BiocFileCache, BiocGenerics, RBGL, biocViews, graph. | | gDRutils | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, BumpyMatrix, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | GDSArray | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SNPRelate, SeqArray, SparseArray, UCSC.utils, XVector, gdsfmt, zlibbioc. | | gdsfmt | Unclaimed | | | GeDi | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocNeighbors, BiocParallel, Biostrings, ComplexHeatmap, DESeq2, DOSE, DelayedArray, GOSemSim, GeneTonic, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, STRINGdb, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, biomaRt, clusterProfiler, enrichplot, fgsea, ggtree, goseq, graph, mosdef, qvalue, rtracklayer, topGO, treeio, txdbmaker, zlibbioc. | | GEM | Unclaimed | | | gemini | Unclaimed | | | gemma.R | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | genArise | Unclaimed | | | geneAttribution | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | GeneBreak | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, CGHbase, CGHcall, DNAcopy, GenomeInfoDb, GenomicRanges, IRanges, QDNAseq, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, impute, limma, marray, zlibbioc. | | geneClassifiers | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | GeneExpressionSignature | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | genefilter | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, annotate, zlibbioc. | | GeneGA | Unclaimed | | | GeneGeneInteR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, snpStats, zlibbioc. | | GeneMeta | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, annotate, genefilter, zlibbioc. | | GeneNetworkBuilder | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, RCy3, Rgraphviz, graph. | | GeneOverlap | Unclaimed | | | geneplast | Unclaimed | | | geneplotter | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, zlibbioc. | | geneRecommender | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | GeneRegionScan | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, affxparser, zlibbioc. | | geneRxCluster | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | GeneSelectMMD | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, limma. | | GENESIS | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DNAcopy, GWASTools, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, SNPRelate, SeqArray, SeqVarTools, UCSC.utils, XVector, gdsfmt, quantsmooth, zlibbioc. | | GeneStructureTools | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, zlibbioc. | | geNetClassifier | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, EBarrays, minet. | | GeneticsPed | Unclaimed | | | GeneTonic | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, ComplexHeatmap, DESeq2, DOSE, DelayedArray, GOSemSim, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, clusterProfiler, enrichplot, fgsea, ggtree, goseq, graph, mosdef, qvalue, rtracklayer, topGO, treeio, txdbmaker, zlibbioc. | | geneXtendeR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, BiocStyle, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | GENIE3 | Unclaimed | | | genoCN | Unclaimed | | | genomation | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, impute, rtracklayer, seqPattern, zlibbioc. | | GenomAutomorphism | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | GenomeInfoDb | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, IRanges, S4Vectors, UCSC.utils. | | genomeIntervals | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | genomes | Unclaimed | | | GenomicAlignments | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | GenomicDataCommons | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | GenomicDistributions | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | GenomicFeatures | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | GenomicFiles | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | genomicInstability | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | GenomicInteractionNodes | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, graph, rtracklayer, zlibbioc. | | GenomicInteractions | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, InteractionSet, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, zlibbioc. | | GenomicOZone | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, ggbio, graph, rtracklayer, txdbmaker, zlibbioc. | | GenomicPlot | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, RCAS, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, edgeR, genomation, impute, limma, plyranges, rtracklayer, seqLogo, seqPattern, txdbmaker, zlibbioc. | | GenomicRanges | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | GenomicScores | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, UCSC.utils, XVector, rhdf5, rhdf5filters, zlibbioc. | | GenomicSuperSignature | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | GenomicTuples | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | GenProSeq | Unclaimed | Incomplete Bioc dependencies: DeepPINCS, ttgsea. | | GenVisR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, rtracklayer, zlibbioc. | | GeoDiff | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, GeomxTools, IRanges, NanoStringNCTools, S4Vectors, UCSC.utils, XVector, zlibbioc. | | GEOexplorer | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GEOquery, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, genefilter, impute, limma, sva, zlibbioc. | | GEOfastq | Unclaimed | | | GEOmetadb | Unclaimed | | | geomeTriD | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, InteractionSet, KEGGREST, MatrixGenerics, ProtGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rhdf5, rhdf5filters, rtracklayer, trackViewer, txdbmaker, zlibbioc. | | GeomxTools | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, NanoStringNCTools, S4Vectors, UCSC.utils, XVector, zlibbioc. | | GEOquery | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, zlibbioc. | | GEOsubmission | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, affy, affyio, preprocessCore, zlibbioc. | | GeoTcgaData | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, cqn, topconfects, zlibbioc. | | gep2pep | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GSEABase, GenomeInfoDb, IRanges, KEGGREST, Rhdf5lib, S4Vectors, UCSC.utils, XVector, annotate, graph, rhdf5, rhdf5filters, zlibbioc. | | getDEE2 | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | geva | Unclaimed | | | GEWIST | Unclaimed | | | gg4way | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | ggbio | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, graph, rtracklayer, txdbmaker, zlibbioc. | | ggcyto | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, IRanges, MatrixGenerics, RBGL, RProtoBufLib, Rgraphviz, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, XVector, cytolib, flowCore, flowWorkspace, graph, ncdfFlow, zlibbioc. | | ggkegg | Unclaimed | Incomplete Bioc dependencies: BiocFileCache. | | ggmanh | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, SeqArray, UCSC.utils, XVector, gdsfmt, zlibbioc. | | ggmsa | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, R4RNA, S4Vectors, UCSC.utils, XVector, ggtree, treeio, zlibbioc. | | GGPA | Unclaimed | | | ggsc | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | ggseqalign | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, pwalign, zlibbioc. | | ggspavis | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | ggtree | Unclaimed | Incomplete Bioc dependencies: treeio. | | ggtreeDendro | Unclaimed | Incomplete Bioc dependencies: ggtree, treeio. | | ggtreeExtra | Unclaimed | Incomplete Bioc dependencies: ggtree, treeio. | | ggtreeSpace | Unclaimed | Incomplete Bioc dependencies: ggtree, treeio. | | GIGSEA | Unclaimed | | | ginmappeR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, UniProt.ws, XVector, zlibbioc. | | gINTomics | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, ComplexHeatmap, DOSE, DelayedArray, GOSemSim, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, InteractiveComplexHeatmap, KEGGREST, MatrixGenerics, MultiAssayExperiment, OmnipathR, ReactomePA, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, clusterProfiler, edgeR, enrichplot, fgsea, ggtree, graph, graphite, limma, qvalue, rtracklayer, shiny.gosling, treeio, zlibbioc. | | girafe | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, genomeIntervals, pwalign, zlibbioc. | | GLAD | Unclaimed | | | GladiaTOX | Unclaimed | | | Glimma | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | glmGamPoi | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, rhdf5, rhdf5filters, sparseMatrixStats, zlibbioc. | | glmSparseNet | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicDataCommons, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, RaggedExperiment, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TCGAutils, UCSC.utils, XVector, biomaRt, rtracklayer, zlibbioc. | | GlobalAncova | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GSEABase, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, globaltest, graph, zlibbioc. | | globalSeq | Unclaimed | | | globaltest | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, zlibbioc. | | GloScope | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | gmapR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | GmicR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationForge, Biobase, BiocGenerics, Biostrings, Category, GOstats, GSEABase, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, RBGL, Rgraphviz, S4Vectors, UCSC.utils, XVector, annotate, genefilter, graph, impute, preprocessCore, zlibbioc. | | gmoviz | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | GMRP | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | GNET2 | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | GNOSIS | Unclaimed | Incomplete Bioc dependencies: AnVIL, AnVILBase, AnnotationDbi, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DNAcopy, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicDataCommons, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, RTCGAToolbox, RaggedExperiment, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TCGAutils, UCSC.utils, XVector, cBioPortalData, maftools, rtracklayer, zlibbioc. | | GOexpress | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, biomaRt, zlibbioc. | | GOfuncR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | GOpro | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocBaseUtils, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | goProfiles | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | GOSemSim | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | goseq | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, rtracklayer, txdbmaker, zlibbioc. | | goSorensen | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DOSE, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, clusterProfiler, enrichplot, fgsea, ggtree, goProfiles, qvalue, treeio, zlibbioc. | | goSTAG | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, biomaRt, zlibbioc. | | GOstats | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationForge, Biobase, BiocGenerics, Biostrings, Category, GSEABase, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, RBGL, Rgraphviz, S4Vectors, UCSC.utils, XVector, annotate, genefilter, graph, zlibbioc. | | GOTHiC | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pwalign, rtracklayer, zlibbioc. | | goTools | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | GPA | Unclaimed | | | gpls | Unclaimed | | | gpuMagic | Unclaimed | Incomplete Bioc dependencies: BiocGenerics. | | GrafGen | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | GRaNIE | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, ComplexHeatmap, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, ensembldb, graph, limma, rtracklayer, topGO, zlibbioc. | | granulator | Unclaimed | | | graper | Unclaimed | | | graph | Unclaimed | Incomplete Bioc dependencies: BiocGenerics. | | GraphAlignment | Unclaimed | | | GraphAT | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, graph. | | graphite | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, graph, zlibbioc. | | GRENITS | Unclaimed | | | GreyListChIP | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | GRmetrics | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | groHMM | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | GSALightning | Unclaimed | | | GSAR | Unclaimed | | | GSCA | Unclaimed | Incomplete Bioc dependencies: Rhdf5lib, rhdf5, rhdf5filters. | | gscreend | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | GSEABase | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, graph, zlibbioc. | | GSEABenchmarkeR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocParallel, BiocVersion, Biostrings, DelayedArray, EnrichmentBrowser, ExperimentHub, GSEABase, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, KEGGgraph, MatrixGenerics, Rgraphviz, S4Arrays, S4Vectors, SPIA, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, graph, graphite, limma, pathview, safe, zlibbioc. | | GSEAlm | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | GSEAmining | Unclaimed | | | gsean | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, IRanges, KEGGREST, PPInfer, S4Vectors, STRINGdb, UCSC.utils, XVector, biomaRt, fgsea, graph, zlibbioc. | | GSgalgoR | Unclaimed | | | GSReg | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, graph, rtracklayer, txdbmaker, zlibbioc. | | GSRI | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GSEABase, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, annotate, genefilter, graph, les, zlibbioc. | | GSVA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocParallel, BiocSingular, Biostrings, DelayedArray, DelayedMatrixStats, GSEABase, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, annotate, assorthead, beachmat, graph, rhdf5, rhdf5filters, sparseMatrixStats, zlibbioc. | | gtrellis | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | GUIDEseq | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, CRISPRseek, ChIPpeakAnno, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, InteractionSet, KEGGREST, MatrixGenerics, ProtGenerics, RBGL, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, ensembldb, graph, limma, multtest, pwalign, regioneR, rhdf5, rhdf5filters, rtracklayer, universalmotif, zlibbioc. | | Guitar | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | Gviz | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, zlibbioc. | | GWAS.BAYES | Unclaimed | Incomplete Bioc dependencies: limma. | | gwascat | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, snpStats, zlibbioc. | | GWASTools | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DNAcopy, gdsfmt, quantsmooth. | | gwasurvivr | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DNAcopy, DelayedArray, GWASTools, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SNPRelate, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, gdsfmt, quantsmooth, rtracklayer, zlibbioc. | | GWENA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, impute, preprocessCore, zlibbioc. | | gypsum | Unclaimed | | | h5vc | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, Rhdf5lib, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, rhdf5, rhdf5filters, zlibbioc. | | hapFabia | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, fabia. | | Harman | Unclaimed | | | HarmonizR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, genefilter, limma, sva, zlibbioc. | | Harshlight | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, affy, affyio, altcdfenvs, graph, hypergraph, makecdfenv, preprocessCore, zlibbioc. | | hca | Unclaimed | Incomplete Bioc dependencies: BiocFileCache. | | HDF5Array | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, DelayedArray, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, XVector, rhdf5, rhdf5filters, zlibbioc. | | HDTD | Unclaimed | | | hdxmsqc | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, BiocStyle, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MetaboCoreUtils, MsCoreUtils, MultiAssayExperiment, ProtGenerics, QFeatures, S4Arrays, S4Vectors, SparseArray, Spectra, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | heatmaps | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, EBImage, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | Heatplus | Unclaimed | | | HelloRanges | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | HELP | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | HEM | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | hermes | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, ComplexHeatmap, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, edgeR, limma, zlibbioc. | | HERON | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, multtest, zlibbioc. | | Herper | Unclaimed | | | HGC | Unclaimed | | | hiAnnotator | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | HIBAG | Unclaimed | | | HicAggR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, InteractionSet, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rhdf5, rhdf5filters, rtracklayer, zlibbioc. | | HiCBricks | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, GenomeInfoDb, GenomicRanges, IRanges, Rhdf5lib, S4Vectors, UCSC.utils, XVector, rhdf5, rhdf5filters, zlibbioc. | | HiCcompare | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, InteractionSet, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rhdf5, rhdf5filters, zlibbioc. | | HiCDCPlus | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicInteractions, GenomicRanges, Gviz, IRanges, InteractionSet, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, zlibbioc. | | HiCDOC | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, HiCcompare, IRanges, InteractionSet, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, multiHiCcompare, rhdf5, rhdf5filters, zlibbioc. | | HiCExperiment | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, InteractionSet, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rhdf5, rhdf5filters, zlibbioc. | | HiContacts | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, HiCExperiment, IRanges, InteractionSet, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rhdf5, rhdf5filters, zlibbioc. | | HiCool | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, HiCExperiment, IRanges, InteractionSet, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, basilisk, basilisk.utils, dir.expiry, rhdf5, rhdf5filters, zlibbioc. | | hicVennDiagram | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, InteractionSet, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | hierGWAS | Unclaimed | | | hierinf | Unclaimed | | | HilbertCurve | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | HilbertVis | Unclaimed | | | HilbertVisGUI | Unclaimed | Incomplete Bioc dependencies: HilbertVis. | | HiLDA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | hipathia | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, preprocessCore, zlibbioc. | | HIPPO | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | hiReadsProcessor | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, hiAnnotator, pwalign, rtracklayer, zlibbioc. | | HIREewas | Unclaimed | | | HiTC | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | hmdbQuery | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, S4Vectors. | | HMMcopy | Unclaimed | | | HoloFoodR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, TreeSummarizedExperiment, UCSC.utils, XVector, treeio, zlibbioc. | | hoodscanR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | hopach | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | HPAanalyze | Unclaimed | | | hpar | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, ExperimentHub, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | HPiP | Unclaimed | | | HTSFilter | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | HuBMAPR | Unclaimed | | | HubPub | Unclaimed | Incomplete Bioc dependencies: biocthis. | | hummingbird | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | HybridExpress | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, ComplexHeatmap, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | HybridMTest | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | hypeR | Unclaimed | Incomplete Bioc dependencies: BiocStyle. | | hyperdraw | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Rgraphviz, graph, hypergraph. | | hypergraph | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, graph. | | iASeq | Unclaimed | | | iasva | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | iBBiG | Unclaimed | | | ibh | Unclaimed | | | iBMQ | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | iCARE | Unclaimed | | | Icens | Unclaimed | | | icetea | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, csaw, edgeR, limma, metapod, pwalign, rtracklayer, zlibbioc. | | iCheck | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GeneSelectMMD, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, annotate, bumphunter, genefilter, illuminaio, limma, lumi, methylumi, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | iChip | Unclaimed | Incomplete Bioc dependencies: limma. | | iClusterPlus | Unclaimed | | | iCNV | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, CODEX, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | iCOBRA | Unclaimed | Incomplete Bioc dependencies: limma. | | ideal | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationForge, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, Category, DESeq2, DOSE, DelayedArray, GOSemSim, GOstats, GSEABase, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IHW, IRanges, KEGGREST, MatrixGenerics, RBGL, Rgraphviz, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, biomaRt, clusterProfiler, enrichplot, fgsea, genefilter, ggtree, goseq, graph, limma, lpsymphony, mosdef, qvalue, rtracklayer, topGO, treeio, txdbmaker, zlibbioc. | | IdeoViz | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | idiogram | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, zlibbioc. | | idpr | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | idr2d | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | IFAA | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | iGC | Unclaimed | | | IgGeneUsage | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | igvR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, BrowserViz, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | igvShiny | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | IHW | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, lpsymphony. | | illuminaio | Unclaimed | | | ILoReg | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | IMAS | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, IVAS, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | imcRtools | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocNeighbors, BiocParallel, DelayedArray, EBImage, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, cytomapper, rhdf5, rhdf5filters, scuttle, zlibbioc. | | IMMAN | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, STRINGdb, UCSC.utils, XVector, pwalign, zlibbioc. | | immApex | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | immunoClust | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | immunogenViewer | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, UniProt.ws, XVector, zlibbioc. | | immunotation | Unclaimed | | | IMPCdata | Unclaimed | | | impute | Unclaimed | | | INDEED | Unclaimed | | | iNETgrate | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocStyle, Biostrings, DOSE, DelayedArray, DelayedMatrixStats, GEOquery, GOSemSim, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, Pigengene, RBGL, ReactomePA, Rgraphviz, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, biomaRt, bumphunter, clusterProfiler, enrichplot, fgsea, genefilter, ggtree, graph, graphite, illuminaio, impute, limma, minfi, multtest, preprocessCore, qvalue, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, treeio, txdbmaker, zlibbioc. | | infercnv | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | infinityFlow | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | Informeasure | Unclaimed | | | InPAS | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, cleanUpdTSeq, limma, plyranges, preprocessCore, rtracklayer, zlibbioc. | | INPower | Unclaimed | | | INSPEcT | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, plgem, rtracklayer, zlibbioc. | | INTACT | Unclaimed | | | InTAD | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, qvalue, rtracklayer, zlibbioc. | | intansv | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, ggbio, graph, rtracklayer, txdbmaker, zlibbioc. | | interacCircos | Unclaimed | | | InteractionSet | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | InteractiveComplexHeatmap | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, ComplexHeatmap, IRanges, S4Vectors. | | interactiveDisplay | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, Category, GSEABase, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, RBGL, S4Vectors, UCSC.utils, XVector, annotate, genefilter, graph, interactiveDisplayBase, zlibbioc. | | interactiveDisplayBase | Unclaimed | Incomplete Bioc dependencies: BiocGenerics. | | InterCellar | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, ComplexHeatmap, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, biomaRt, zlibbioc. | | IntEREst | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DEXSeq, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, annotate, biomaRt, edgeR, genefilter, geneplotter, limma, rtracklayer, seqLogo, txdbmaker, zlibbioc. | | IntramiRExploreR | Unclaimed | Incomplete Bioc dependencies: FGNet. | | IONiseR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pwalign, rhdf5, rhdf5filters, zlibbioc. | | iPath | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | ipdDb | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | IPO | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, CAMERA, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MassSpecWavelet, MatrixGenerics, MetaboCoreUtils, MsCoreUtils, MsExperiment, MsFeatures, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, RBGL, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, Spectra, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, graph, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, xcms, zlibbioc. | | IRanges | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, S4Vectors. | | ISAnalytics | Unclaimed | | | iSEE | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | iSEEde | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, ComplexHeatmap, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, iSEE, limma, zlibbioc. | | iSEEfier | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, iSEE, iSEEhex, iSEEu, zlibbioc. | | iSEEhex | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, iSEE, zlibbioc. | | iSEEhub | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, ComplexHeatmap, DelayedArray, ExperimentHub, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, iSEE, zlibbioc. | | iSEEindex | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, iSEE, zlibbioc. | | iSEEpathways | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, iSEE, zlibbioc. | | iSEEtree | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, Biostrings, ComplexHeatmap, DECIPHER, DelayedArray, DelayedMatrixStats, DirichletMultinomial, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, TreeSummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, decontam, ggtree, iSEE, mia, miaViz, scater, scuttle, sparseMatrixStats, treeio, zlibbioc. | | iSEEu | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, iSEE, iSEEhex, zlibbioc. | | iSeq | Unclaimed | | | ISLET | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | isobar | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, biomaRt, zlibbioc. | | IsoBayes | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | IsoCorrectoR | Unclaimed | | | IsoCorrectoRGUI | Unclaimed | Incomplete Bioc dependencies: IsoCorrectoR. | | IsoformSwitchAnalyzeR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DESeq2, DEXSeq, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, biomaRt, edgeR, ensembldb, genefilter, geneplotter, limma, pfamAnalyzeR, pwalign, rtracklayer, satuRn, sva, txdbmaker, tximeta, tximport, zlibbioc. | | ISoLDE | Unclaimed | | | isomiRs | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, ComplexHeatmap, ConsensusClusterPlus, DEGreport, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | ITALICS | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DelayedArray, GLAD, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affxparser, affyio, oligo, oligoClasses, preprocessCore, zlibbioc. | | iterativeBMA | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | iterativeBMAsurv | Unclaimed | | | IVAS | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | ivygapSE | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | IWTomics | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | karyoploteR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, bamsignals, biovizBase, ensembldb, regioneR, rtracklayer, zlibbioc. | | katdetectr | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DNAcopy, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, maftools, plyranges, rtracklayer, zlibbioc. | | KBoost | Unclaimed | | | KCsmart | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, multtest, siggenes. | | kebabs | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | KEGGgraph | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Rgraphviz, graph. | | KEGGlincs | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, KEGGgraph, Rgraphviz, S4Vectors, UCSC.utils, XVector, graph, zlibbioc. | | keggorthology | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, graph, zlibbioc. | | KEGGREST | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | KinSwingR | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | kissDE | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DSS, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicAlignments, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bsseq, limma, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, zlibbioc. | | kmcut | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | KnowSeq | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, annotate, cqn, edgeR, genefilter, limma, sva, zlibbioc. | | knowYourCG | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, ExperimentHub, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | koinar | Unclaimed | | | LACE | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, zlibbioc. | | lapmix | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | LBE | Unclaimed | | | ldblock | Unclaimed | Incomplete Bioc dependencies: BiocGenerics. | | LEA | Unclaimed | | | LedPred | Unclaimed | | | lefser | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, ggtree, treeio, zlibbioc. | | lemur | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, glmGamPoi, limma, rhdf5, rhdf5filters, sparseMatrixStats, zlibbioc. | | les | Unclaimed | | | levi | Unclaimed | | | lfa | Unclaimed | | | limma | Unclaimed | | | limmaGUI | Unclaimed | Incomplete Bioc dependencies: limma. | | limpca | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | lineagespot | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | LinkHD | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | Linnorm | Unclaimed | Incomplete Bioc dependencies: limma. | | LinTInd | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, ggtree, pwalign, treeio, zlibbioc. | | lionessR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | lipidr | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, MultiDataSet, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, fgsea, impute, limma, pcaMethods, ropls, zlibbioc. | | LiquidAssociation | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | lisaClust | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, ClassifyR, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, annotate, dcanr, genefilter, spicyR, zlibbioc. | | lmdme | Unclaimed | Incomplete Bioc dependencies: limma. | | LOBSTAHS | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, CAMERA, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MassSpecWavelet, MatrixGenerics, MetaboCoreUtils, MsCoreUtils, MsExperiment, MsFeatures, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, RBGL, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, Spectra, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, graph, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, xcms, zlibbioc. | | loci2path | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | logicFS | Unclaimed | | | LOLA | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | LoomExperiment | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, DelayedArray, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rhdf5, rhdf5filters, zlibbioc. | | LPE | Unclaimed | | | lpNet | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, KEGGgraph, Rgraphviz, graph. | | lpsymphony | Unclaimed | | | LRBaseDbi | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | LRcell | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocParallel, BiocVersion, Biostrings, ExperimentHub, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | lumi | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, annotate, bumphunter, genefilter, illuminaio, limma, methylumi, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | lute | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, limma, metapod, scran, scuttle, zlibbioc. | | LymphoSeq | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, ggtree, msa, treeio, zlibbioc. | | M3C | Unclaimed | | | M3Drop | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, scater, scuttle, zlibbioc. | | m6Aboost | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, ExperimentHub, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | Maaslin2 | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Wrench, edgeR, limma, metagenomeSeq. | | Macarron | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, Maaslin2, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, Wrench, XVector, edgeR, impute, limma, metagenomeSeq, preprocessCore, zlibbioc. | | maCorrPlot | Unclaimed | | | MACSQuantifyR | Unclaimed | | | MACSr | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, ExperimentHub, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, basilisk, basilisk.utils, dir.expiry, zlibbioc. | | made4 | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | MADSEQ | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, preprocessCore, rtracklayer, zlibbioc. | | maftools | Unclaimed | Incomplete Bioc dependencies: DNAcopy, Rhtslib, zlibbioc. | | MAGAR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, RnBeads, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affyio, annotate, bumphunter, crlmm, genefilter, illuminaio, impute, limma, methylumi, minfi, multtest, oligoClasses, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, snpStats, sparseMatrixStats, zlibbioc. | | MAGeCKFlute | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocParallel, BiocVersion, Biostrings, DOSE, ExperimentHub, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, KEGGgraph, Rgraphviz, S4Vectors, UCSC.utils, XVector, clusterProfiler, enrichplot, fgsea, ggtree, graph, pathview, qvalue, treeio, zlibbioc. | | magpie | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TRESS, UCSC.utils, XVector, rtracklayer, zlibbioc. | | magrene | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | MAI | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pcaMethods, zlibbioc. | | MAIT | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, CAMERA, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MassSpecWavelet, MatrixGenerics, MetaboCoreUtils, MsCoreUtils, MsExperiment, MsFeatures, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, RBGL, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, Spectra, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, graph, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, xcms, zlibbioc. | | makecdfenv | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, affy, affyio, preprocessCore, zlibbioc. | | MANOR | Unclaimed | Incomplete Bioc dependencies: GLAD. | | MantelCorr | Unclaimed | | | MAPFX | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ComplexHeatmap, IRanges, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | maPredictDSC | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, ROC, S4Vectors, UCSC.utils, XVector, affy, affyio, gcrma, limma, preprocessCore, zlibbioc. | | mapscape | Unclaimed | | | mariner | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, HDF5Array, IRanges, InteractionSet, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, plotgardener, plyranges, rhdf5, rhdf5filters, rtracklayer, zlibbioc. | | marr | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | marray | Unclaimed | Incomplete Bioc dependencies: limma. | | martini | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, snpStats, zlibbioc. | | maser | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, zlibbioc. | | maSigPro | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | maskBAD | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, affy, affyio, gcrma, preprocessCore, zlibbioc. | | MassArray | Unclaimed | | | massiR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | MassSpecWavelet | Unclaimed | | | MAST | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | mastR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, DelayedArray, ExperimentHub, GSEABase, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, graph, limma, zlibbioc. | | matchBox | Unclaimed | | | MatrixGenerics | Unclaimed | | | MatrixQCvis | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocParallel, BiocVersion, Biostrings, ComplexHeatmap, DelayedArray, ExperimentHub, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, annotate, edgeR, genefilter, impute, limma, pcaMethods, preprocessCore, proDA, sva, vsn, zlibbioc. | | MatrixRider | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, CNEr, DelayedArray, DirichletMultinomial, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TFBSTools, UCSC.utils, XVector, annotate, pwalign, rtracklayer, seqLogo, zlibbioc. | | matter | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, ProtGenerics. | | MBAmethyl | Unclaimed | | | MBASED | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | MBCB | Unclaimed | Incomplete Bioc dependencies: preprocessCore. | | MBECS | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, S4Vectors, UCSC.utils, XVector, annotate, biomformat, edgeR, genefilter, limma, multtest, phyloseq, rhdf5, rhdf5filters, sva, zlibbioc. | | mbkmeans | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, zlibbioc. | | mBPCR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DNAcopy, DelayedArray, GWASTools, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affyio, gdsfmt, oligoClasses, quantsmooth, zlibbioc. | | MBQN | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, preprocessCore, zlibbioc. | | mbQTL | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Wrench, limma, metagenomeSeq. | | MBttest | Unclaimed | | | MCbiclust | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, impute, preprocessCore, zlibbioc. | | mCSEA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, fgsea, graph, limma, rtracklayer, txdbmaker, zlibbioc. | | mdp | Unclaimed | | | mdqc | Unclaimed | | | MDTS | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DNAcopy, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | MEAL | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, HDF5Array, IRanges, KEGGREST, MatrixGenerics, MultiDataSet, ProtGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, annotate, biomaRt, biovizBase, bumphunter, edgeR, ensembldb, genefilter, illuminaio, limma, methylumi, minfi, missMethyl, multtest, preprocessCore, qvalue, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, sva, zlibbioc. | | MeasurementError.cor | Unclaimed | | | MEAT | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, ROC, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, annotate, bumphunter, genefilter, illuminaio, impute, limma, lumi, methylumi, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, wateRmelon, zlibbioc. | | MEB | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, edgeR, limma, scater, scuttle, zlibbioc. | | MEDIPS | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DNAcopy, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, edgeR, limma, preprocessCore, rtracklayer, zlibbioc. | | MEDME | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | megadepth | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | MEIGOR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, CNORode, CellNOptR, RBGL, Rgraphviz, graph. | | Melissa | Unclaimed | Incomplete Bioc dependencies: BPRMeth, BiocGenerics, BiocStyle, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | memes | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Vectors, UCSC.utils, XVector, universalmotif, zlibbioc. | | Mergeomics | Unclaimed | | | MeSHDbi | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | meshes | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocParallel, BiocVersion, Biostrings, DOSE, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, MeSHDbi, S4Vectors, UCSC.utils, XVector, enrichplot, fgsea, ggtree, qvalue, treeio, zlibbioc. | | meshr | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocStyle, Biostrings, Category, GSEABase, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, MeSHDbi, RBGL, S4Vectors, UCSC.utils, XVector, annotate, genefilter, graph, zlibbioc. | | MesKit | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, ComplexHeatmap, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | messina | Unclaimed | | | metabCombiner | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, S4Vectors. | | metabinR | Unclaimed | | | MetaboAnnotation | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocParallel, BiocVersion, Biostrings, ChemmineR, CompoundDb, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MetaboCoreUtils, MsCoreUtils, MultiAssayExperiment, ProtGenerics, QFeatures, S4Arrays, S4Vectors, SparseArray, Spectra, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | MetaboCoreUtils | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, MsCoreUtils, S4Vectors. | | metabolomicsWorkbenchR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rols, struct, zlibbioc. | | metabomxtr | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, multtest. | | MetaboSignal | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, ComplexHeatmap, DelayedArray, ExperimentHub, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, KEGGgraph, MWASTools, MatrixGenerics, ProtGenerics, Rgraphviz, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, ensembldb, graph, hpar, mygene, qvalue, rtracklayer, txdbmaker, zlibbioc. | | metaCCA | Unclaimed | | | MetaCyto | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ConsensusClusterPlus, FlowSOM, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | metagene2 | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | metagenomeSeq | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Wrench, limma. | | metahdep | Unclaimed | | | metaMS | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, CAMERA, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MassSpecWavelet, MatrixGenerics, MetaboCoreUtils, MsCoreUtils, MsExperiment, MsFeatures, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, RBGL, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, Spectra, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, graph, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, xcms, zlibbioc. | | MetaNeighbor | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | MetaPhOR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DOSE, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, RCy3, S4Vectors, UCSC.utils, XVector, clusterProfiler, enrichplot, fgsea, ggtree, graph, qvalue, treeio, zlibbioc. | | metapod | Unclaimed | | | metapone | Unclaimed | Incomplete Bioc dependencies: BiocParallel, fgsea. | | metaSeq | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, NOISeq. | | metaseqR2 | Unclaimed | Incomplete Bioc dependencies: ABSSeq, AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DSS, DelayedArray, DelayedMatrixStats, EDASeq, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, annotate, aroma.light, assorthead, beachmat, biomaRt, bsseq, edgeR, genefilter, limma, preprocessCore, pwalign, qvalue, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, survcomp, txdbmaker, vsn, zlibbioc. | | MetCirc | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, IRanges, MetaboCoreUtils, MsCoreUtils, ProtGenerics, S4Vectors, Spectra. | | methimpute | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | methInheritSim | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, fastseg, limma, methylKit, qvalue, rtracklayer, zlibbioc. | | methodical | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationForge, AnnotationHub, AnnotationHubData, BSgenome, Biobase, BiocBaseUtils, BiocCheck, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocStyle, BiocVersion, Biostrings, DelayedArray, DelayedMatrixStats, ExperimentHub, ExperimentHubData, GenomeInfoDb, GenomicAlignments, GenomicDataCommons, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, OrganismDbi, RBGL, RaggedExperiment, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TCGAutils, UCSC.utils, XVector, annotatr, biocViews, biomaRt, graph, methrix, regioneR, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, txdbmaker, zlibbioc. | | MethPed | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | MethReg | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, CNEr, DelayedArray, DirichletMultinomial, ExperimentHub, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TFBSTools, UCSC.utils, XVector, annotate, preprocessCore, pwalign, rtracklayer, seqLogo, sesame, zlibbioc. | | methrix | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicAlignments, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, zlibbioc. | | MethTargetedNGS | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, pwalign, zlibbioc. | | MethylAid | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, bumphunter, genefilter, illuminaio, limma, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | methylCC | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, assorthead, beachmat, bsseq, bumphunter, genefilter, illuminaio, limma, minfi, multtest, plyranges, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | methylclock | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationForge, AnnotationHub, AnnotationHubData, Biobase, BiocBaseUtils, BiocCheck, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, DelayedMatrixStats, ExperimentHub, ExperimentHubData, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, RBGL, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, biocViews, biomaRt, bumphunter, genefilter, graph, illuminaio, impute, limma, minfi, multtest, planet, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, txdbmaker, zlibbioc. | | methylGSA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DOSE, DelayedArray, DelayedMatrixStats, GEOquery, GOSemSim, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, bumphunter, clusterProfiler, enrichplot, fgsea, genefilter, ggtree, illuminaio, limma, methylumi, minfi, missMethyl, multtest, preprocessCore, qvalue, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, treeio, zlibbioc. | | methyLImp2 | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | methylInheritance | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, fastseg, limma, methylKit, qvalue, rtracklayer, zlibbioc. | | methylKit | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, fastseg, limma, qvalue, rtracklayer, zlibbioc. | | MethylMix | Unclaimed | Incomplete Bioc dependencies: impute, limma. | | methylMnM | Unclaimed | Incomplete Bioc dependencies: edgeR, limma. | | methylPipe | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, limma, marray, rtracklayer, zlibbioc. | | methylscaper | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pwalign, zlibbioc. | | MethylSeekR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, geneplotter, rtracklayer, zlibbioc. | | methylSig | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DSS, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicAlignments, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bsseq, limma, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, zlibbioc. | | methylumi | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, bumphunter, genefilter, illuminaio, limma, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | MetID | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, ChemmineR. | | MetMashR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rols, struct, zlibbioc. | | MetNet | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GENIE3, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | mfa | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | Mfuzz | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DynDoc, tkWidgets, widgetTools. | | MGFM | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, zlibbioc. | | MGFR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, biomaRt, zlibbioc. | | MGnifyR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, Biostrings, DECIPHER, DelayedArray, DelayedMatrixStats, DirichletMultinomial, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, TreeSummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, decontam, mia, scater, scuttle, sparseMatrixStats, treeio, zlibbioc. | | mgsa | Unclaimed | | | mia | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, Biostrings, DECIPHER, DelayedArray, DelayedMatrixStats, DirichletMultinomial, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, TreeSummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, decontam, scater, scuttle, sparseMatrixStats, treeio, zlibbioc. | | miaSim | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, TreeSummarizedExperiment, UCSC.utils, XVector, treeio, zlibbioc. | | miaViz | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, Biostrings, DECIPHER, DelayedArray, DelayedMatrixStats, DirichletMultinomial, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, TreeSummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, decontam, ggtree, mia, scater, scuttle, sparseMatrixStats, treeio, zlibbioc. | | MiChip | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | microbiome | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, Rhdf5lib, S4Vectors, UCSC.utils, XVector, biomformat, multtest, phyloseq, rhdf5, rhdf5filters, zlibbioc. | | microbiomeDASim | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, Rhdf5lib, S4Vectors, UCSC.utils, Wrench, XVector, biomformat, limma, metagenomeSeq, multtest, phyloseq, rhdf5, rhdf5filters, zlibbioc. | | microbiomeExplorer | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, Wrench, XVector, biomformat, limma, metagenomeSeq, rhdf5, rhdf5filters, zlibbioc. | | MicrobiomeProfiler | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DOSE, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, clusterProfiler, enrichplot, fgsea, ggtree, qvalue, treeio, zlibbioc. | | MicrobiotaProcess | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, ggtree, ggtreeExtra, treeio, zlibbioc. | | microRNA | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | microSTASIS | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, TreeSummarizedExperiment, UCSC.utils, XVector, treeio, zlibbioc. | | MICSQTL | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, EpiDISH, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TOAST, UCSC.utils, XVector, limma, zlibbioc. | | midasHLA | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | miloR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, edgeR, limma, zlibbioc. | | mimager | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affxparser, affy, affyPLM, affyio, gcrma, oligo, oligoClasses, preprocessCore, zlibbioc. | | mina | Unclaimed | | | MineICA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationForge, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, Category, DelayedArray, DelayedMatrixStats, GEOquery, GOstats, GSEABase, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, RBGL, Rgraphviz, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, annotate, biomaRt, bumphunter, genefilter, graph, illuminaio, limma, lumi, marray, methylumi, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | minet | Unclaimed | | | minfi | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, bumphunter, genefilter, illuminaio, limma, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | MinimumDistance | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DNAcopy, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VanillaICE, XVector, affyio, crlmm, illuminaio, limma, oligoClasses, preprocessCore, rtracklayer, zlibbioc. | | MiPP | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | miQC | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | MIRA | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicAlignments, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bsseq, limma, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, zlibbioc. | | MiRaGE | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | miRBaseConverter | Unclaimed | | | miRcomp | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | mirIntegrator | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, KEGGgraph, ROntoTools, Rgraphviz, S4Vectors, UCSC.utils, XVector, graph, zlibbioc. | | MIRit | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, DESeq2, DOSE, DelayedArray, GOSemSim, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, Rgraphviz, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, clusterProfiler, edgeR, enrichplot, fgsea, ggtree, graph, graphite, limma, qvalue, treeio, zlibbioc. | | miRLAB | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationForge, Biobase, BiocFileCache, BiocGenerics, Biostrings, Category, DelayedArray, GOstats, GSEABase, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, RBGL, Rgraphviz, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TCGAbiolinks, UCSC.utils, XVector, annotate, biomaRt, ctc, genefilter, graph, impute, limma, zlibbioc. | | miRNAmeConverter | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | miRNApath | Unclaimed | | | miRNAtap | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | miRSM | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BicARE, Biobase, BiocGenerics, BiocParallel, Biostrings, DOSE, DelayedArray, GOSemSim, GSEABase, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ReactomePA, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, clusterProfiler, enrichplot, fabia, fgsea, ggtree, graph, graphite, iBBiG, impute, multtest, preprocessCore, qvalue, rqubic, treeio, zlibbioc. | | miRspongeR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, ComplexHeatmap, DOSE, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, ReactomePA, S4Vectors, SPONGE, UCSC.utils, XVector, biomaRt, clusterProfiler, enrichplot, fgsea, ggtree, graph, graphite, qvalue, treeio, zlibbioc. | | mirTarRnaSeq | Unclaimed | | | missMethyl | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, bumphunter, genefilter, illuminaio, limma, methylumi, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | missRows | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | mistyR | Unclaimed | | | mitch | Unclaimed | | | mitoClone2 | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, deepSNV, rtracklayer, zlibbioc. | | mixOmics | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | MLInterfaces | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, genefilter, zlibbioc. | | MLP | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | MLSeq | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, sSeq, zlibbioc. | | MMDiff2 | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | MMUPHin | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Maaslin2, Wrench, edgeR, limma, metagenomeSeq. | | mnem | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Linnorm, Rgraphviz, graph, limma. | | moanin | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, graph, limma, topGO, zlibbioc. | | mobileRNA | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, rtracklayer, zlibbioc. | | MODA | Unclaimed | Incomplete Bioc dependencies: AMOUNTAIN, AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, impute, preprocessCore, zlibbioc. | | ModCon | Unclaimed | | | Modstrings | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | MOFA2 | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, DelayedArray, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, XVector, basilisk, basilisk.utils, dir.expiry, rhdf5, rhdf5filters, zlibbioc. | | MOGAMUN | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, RCy3, graph. | | mogsa | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GSEABase, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, annotate, genefilter, graph, graphite, zlibbioc. | | MoleculeExperiment | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocParallel, DelayedArray, EBImage, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, rhdf5, rhdf5filters, zlibbioc. | | MOMA | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, qvalue, zlibbioc. | | monaLisa | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, CNEr, ComplexHeatmap, DelayedArray, DirichletMultinomial, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TFBSTools, UCSC.utils, XVector, annotate, pwalign, rtracklayer, seqLogo, zlibbioc. | | monocle | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RBGL, biocViews, graph, limma. | | Moonlight2R | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, ComplexHeatmap, DOSE, DelayedArray, EpiMix, ExperimentHub, GEOquery, GOSemSim, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, clusterProfiler, enrichplot, fgsea, ggtree, impute, limma, qvalue, rtracklayer, treeio, zlibbioc. | | MoonlightR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, DOSE, DelayedArray, GEOquery, GOSemSim, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TCGAbiolinks, UCSC.utils, XVector, biomaRt, clusterProfiler, enrichplot, fgsea, ggtree, limma, qvalue, treeio, zlibbioc. | | mosaics | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | mosbi | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, QUBIC, fabia. | | MOSClip | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocBaseUtils, BiocGenerics, BiocIO, BiocParallel, Biostrings, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, Rgraphviz, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, graph, graphite, qpgraph, rtracklayer, zlibbioc. | | mosdef | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DOSE, DelayedArray, GOSemSim, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, clusterProfiler, enrichplot, fgsea, ggtree, goseq, graph, qvalue, rtracklayer, topGO, treeio, txdbmaker, zlibbioc. | | MOSim | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, limma, metapod, scran, scuttle, zlibbioc. | | Motif2Site | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, rtracklayer, zlibbioc. | | motifbreakR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, CNEr, DelayedArray, DirichletMultinomial, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, MotifDb, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TFBSTools, UCSC.utils, VariantAnnotation, XVector, annotate, biomaRt, biovizBase, ensembldb, motifStack, pwalign, rtracklayer, seqLogo, zlibbioc. | | motifcounter | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | MotifDb | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | motifmatchr | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, CNEr, DelayedArray, DirichletMultinomial, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TFBSTools, UCSC.utils, XVector, annotate, pwalign, rtracklayer, seqLogo, zlibbioc. | | motifStack | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, CNEr, DelayedArray, DirichletMultinomial, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TFBSTools, UCSC.utils, XVector, annotate, pwalign, rtracklayer, seqLogo, zlibbioc. | | motifTestR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Vectors, UCSC.utils, XVector, universalmotif, zlibbioc. | | MouseFM | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, biomaRt, zlibbioc. | | MPAC | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, fgsea, limma, metapod, scran, scuttle, zlibbioc. | | MPFE | Unclaimed | | | mpra | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, zlibbioc. | | MPRAnalyze | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | msa | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | MSA2dist | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, pwalign, zlibbioc. | | MsBackendMassbank | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, IRanges, MetaboCoreUtils, MsCoreUtils, ProtGenerics, S4Vectors, Spectra. | | MsBackendMetaboLights | Unclaimed | Incomplete Bioc dependencies: BiocFileCache, BiocGenerics, BiocParallel, IRanges, MetaboCoreUtils, MsCoreUtils, ProtGenerics, S4Vectors, Spectra. | | MsBackendMgf | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, IRanges, MetaboCoreUtils, MsCoreUtils, ProtGenerics, S4Vectors, Spectra. | | MsBackendMsp | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, IRanges, MetaboCoreUtils, MsCoreUtils, ProtGenerics, S4Vectors, Spectra. | | MsBackendRawFileReader | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, IRanges, MetaboCoreUtils, MsCoreUtils, ProtGenerics, S4Vectors, Spectra, rawrr. | | MsBackendSql | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, IRanges, MetaboCoreUtils, MsCoreUtils, ProtGenerics, S4Vectors, Spectra. | | MsCoreUtils | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, S4Vectors. | | MsDataHub | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, ExperimentHub, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | MsExperiment | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MetaboCoreUtils, MsCoreUtils, MultiAssayExperiment, ProtGenerics, QFeatures, S4Arrays, S4Vectors, SparseArray, Spectra, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | MsFeatures | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MsCoreUtils, ProtGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | msgbsR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, easyRNASeq, edgeR, ensembldb, genomeIntervals, ggbio, graph, limma, pwalign, rtracklayer, txdbmaker, zlibbioc. | | msImpute | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, limma, metapod, scran, scuttle, zlibbioc. | | mslp | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, RankProd, S4Vectors, UCSC.utils, XVector, zlibbioc. | | msmsEDA | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, zlibbioc. | | msmsTests | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, edgeR, impute, limma, msmsEDA, mzID, mzR, pcaMethods, preprocessCore, qvalue, vsn, zlibbioc. | | MSnbase | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, zlibbioc. | | MSnID | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocParallel, BiocStyle, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, edgeR, impute, limma, msmsEDA, msmsTests, mzID, mzR, pcaMethods, preprocessCore, qvalue, vsn, zlibbioc. | | MSPrep | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, genefilter, limma, pcaMethods, preprocessCore, sva, zlibbioc. | | msPurity | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ProtGenerics, Rhdf5lib, mzR. | | msqrob2 | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, ProtGenerics, QFeatures, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, zlibbioc. | | MsQuality | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MetaboCoreUtils, MsCoreUtils, MsExperiment, MultiAssayExperiment, ProtGenerics, QFeatures, S4Arrays, S4Vectors, SparseArray, Spectra, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | MSstats | Unclaimed | Incomplete Bioc dependencies: MSstatsConvert, limma, marray, preprocessCore. | | MSstatsBig | Unclaimed | Incomplete Bioc dependencies: MSstats, MSstatsConvert, limma, marray, preprocessCore. | | MSstatsConvert | Unclaimed | | | MSstatsLiP | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, MSstats, MSstatsConvert, MSstatsPTM, MSstatsTMT, S4Vectors, UCSC.utils, XVector, limma, marray, preprocessCore, zlibbioc. | | MSstatsLOBD | Unclaimed | | | MSstatsPTM | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, MSstats, MSstatsConvert, MSstatsTMT, S4Vectors, UCSC.utils, XVector, limma, marray, preprocessCore, zlibbioc. | | MSstatsQC | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, qcmetrics, vsn, zlibbioc. | | MSstatsQCgui | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MSstatsQC, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, qcmetrics, vsn, zlibbioc. | | MSstatsShiny | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, MSstats, MSstatsConvert, MSstatsPTM, MSstatsTMT, S4Vectors, UCSC.utils, XVector, limma, marray, preprocessCore, zlibbioc. | | MSstatsTMT | Unclaimed | Incomplete Bioc dependencies: MSstats, MSstatsConvert, limma, marray, preprocessCore. | | MuData | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rhdf5, rhdf5filters, zlibbioc. | | Mulcom | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | MultiAssayExperiment | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | MultiBaC | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, MultiDataSet, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, pcaMethods, ropls, zlibbioc. | | multiClust | Unclaimed | Incomplete Bioc dependencies: ctc. | | multicrispr | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, CRISPRseek, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rbowtie, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, bamsignals, biovizBase, ensembldb, karyoploteR, plyranges, regioneR, rhdf5, rhdf5filters, rtracklayer, zlibbioc. | | MultiDataSet | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, zlibbioc. | | multiGSEA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocParallel, BiocVersion, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, fgsea, graph, graphite, multtest, zlibbioc. | | multiHiCcompare | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, HiCcompare, IRanges, InteractionSet, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, rhdf5, rhdf5filters, zlibbioc. | | MultiMed | Unclaimed | | | multiMiR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | MultimodalExperiment | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | MultiRNAflow | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, ComplexHeatmap, DESeq2, DelayedArray, DynDoc, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, Mfuzz, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, tkWidgets, widgetTools, zlibbioc. | | multiscan | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | multistateQTL | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, QTLExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | multiWGCNA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, dcanr, impute, preprocessCore, zlibbioc. | | multtest | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | mumosa | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, ResidualMatrix, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, batchelor, beachmat, bluster, edgeR, limma, metapod, scran, scuttle, sparseMatrixStats, zlibbioc. | | MungeSumstats | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | muscat | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, ComplexHeatmap, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, edgeR, limma, scater, scuttle, variancePartition, zlibbioc. | | muscle | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | musicatk | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, ComplexHeatmap, DNAcopy, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, decompTumor2Sig, maftools, rtracklayer, zlibbioc. | | MutationalPatterns | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | MVCClass | Unclaimed | | | MWASTools | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, KEGGgraph, MatrixGenerics, Rgraphviz, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, graph, qvalue, zlibbioc. | | mygene | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, rtracklayer, txdbmaker, zlibbioc. | | myvariant | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | mzID | Unclaimed | Incomplete Bioc dependencies: ProtGenerics. | | mzR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ProtGenerics, Rhdf5lib. | | NADfinder | Unclaimed | Incomplete Bioc dependencies: ATACseqQC, AnnotationDbi, AnnotationFilter, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, CNEr, ChIPpeakAnno, DelayedArray, DirichletMultinomial, EmpiricalBrownsMethod, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, GenomicScores, Gviz, HDF5Array, IRanges, InteractionSet, KEGGREST, MatrixGenerics, ProtGenerics, RBGL, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TFBSTools, UCSC.utils, VariantAnnotation, XVector, annotate, biomaRt, biovizBase, csaw, edgeR, ensembldb, graph, limma, metapod, motifStack, multtest, pwalign, regioneR, rhdf5, rhdf5filters, rtracklayer, seqLogo, trackViewer, txdbmaker, universalmotif, zlibbioc. | | NanoMethViz | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, BiocSingular, Biostrings, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicAlignments, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ScaledMatrix, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bsseq, limma, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, zlibbioc. | | NanoStringDiff | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | NanoStringNCTools | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | NanoTube | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, fgsea, limma. | | NBAMSeq | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, genefilter, zlibbioc. | | ncdfFlow | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | ncGTW | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MassSpecWavelet, MatrixGenerics, MetaboCoreUtils, MsCoreUtils, MsExperiment, MsFeatures, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, Spectra, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, xcms, zlibbioc. | | NCIgraph | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, KEGGgraph, RBGL, RCy3, Rgraphviz, graph. | | ncRNAtools | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | ndexr | Unclaimed | Incomplete Bioc dependencies: RCX. | | nearBynding | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, plyranges, rtracklayer, zlibbioc. | | Nebulosa | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | nempi | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Linnorm, RBGL, Rgraphviz, epiNEM, graph, limma, minet, mnem. | | NetActivity | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, sparseMatrixStats, zlibbioc. | | netboost | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocStyle, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, impute, preprocessCore, zlibbioc. | | nethet | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, graph, limma, multtest. | | NetPathMiner | Unclaimed | | | netprioR | Unclaimed | | | netresponse | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocStyle, Rgraphviz, graph, minet, qvalue. | | NetSAM | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, biomaRt, impute, preprocessCore, zlibbioc. | | netSmooth | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, assorthead, beachmat, clusterExperiment, edgeR, genefilter, limma, mbkmeans, rhdf5, rhdf5filters, scater, scuttle, zinbwave, zlibbioc. | | netZooR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationForge, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, Category, DelayedArray, DelayedMatrixStats, GEOquery, GOstats, GSEABase, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, RBGL, RCy3, Rgraphviz, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, STRINGdb, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, biomaRt, bumphunter, edgeR, genefilter, graph, illuminaio, limma, minfi, multtest, pandaR, preprocessCore, quantro, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, yarn, zlibbioc. | | NewWave | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SharedObject, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, zlibbioc. | | ngsReports | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | nipalsMCIA | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, fgsea, zlibbioc. | | nnNorm | Unclaimed | Incomplete Bioc dependencies: limma, marray. | | nnSVG | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | NOISeq | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | NoRCE | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, rWikiPathways, rtracklayer, zlibbioc. | | normalize450K | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, illuminaio. | | NormalyzerDE | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, limma, preprocessCore, vsn, zlibbioc. | | NormqPCR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ReadqPCR. | | normr | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, bamsignals, qvalue, rtracklayer, zlibbioc. | | NPARC | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | npGSEA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GSEABase, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, graph, zlibbioc. | | NTW | Unclaimed | | | nucleoSim | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, IRanges, S4Vectors. | | nucleR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pwalign, zlibbioc. | | nuCpos | Unclaimed | | | nullranges | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, InteractionSet, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, plyranges, rtracklayer, zlibbioc. | | NuPoP | Unclaimed | | | occugene | Unclaimed | | | OCplus | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, multtest. | | octad | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocSingular, BiocVersion, Biostrings, DESeq2, DelayedArray, DelayedMatrixStats, EDASeq, ExperimentHub, GSEABase, GSVA, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, RUVSeq, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ScaledMatrix, ShortRead, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, annotate, aroma.light, assorthead, beachmat, biomaRt, edgeR, graph, limma, pwalign, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, zlibbioc. | | odseq | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, kebabs, msa, zlibbioc. | | OGRE | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, zlibbioc. | | oligo | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affxparser, affyio, oligoClasses, preprocessCore, zlibbioc. | | oligoClasses | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affyio, zlibbioc. | | OLIN | Unclaimed | Incomplete Bioc dependencies: limma, marray. | | OLINgui | Unclaimed | Incomplete Bioc dependencies: DynDoc, OLIN, limma, marray, tkWidgets, widgetTools. | | omada | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | OmaDB | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, graph, topGO, zlibbioc. | | omicade4 | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, made4, zlibbioc. | | OmicCircos | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | omicplotR | Unclaimed | Incomplete Bioc dependencies: ALDEx2, Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, multtest, zlibbioc. | | omicRexposome | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MultiDataSet, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, genefilter, impute, limma, made4, omicade4, pcaMethods, qvalue, rexposome, sva, zlibbioc. | | OmicsMLRepoR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, rols. | | OMICsPCA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocBaseUtils, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HelloRanges, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | omicsPrint | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, RaggedExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | omicsViewer | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, fgsea, zlibbioc. | | Omixer | Unclaimed | | | OmnipathR | Unclaimed | | | ompBAM | Unclaimed | | | omXplore | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, zlibbioc. | | oncomix | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | oncoscanR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | OncoScore | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, biomaRt, zlibbioc. | | OncoSimulR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Rgraphviz, graph. | | onlineFDR | Unclaimed | | | ontoProc | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rgraphviz, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, basilisk, basilisk.utils, dir.expiry, graph, zlibbioc. | | openCyto | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, IRanges, MatrixGenerics, RBGL, RProtoBufLib, Rgraphviz, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, XVector, cytolib, flowClust, flowCore, flowViz, flowWorkspace, graph, ncdfFlow, zlibbioc. | | openPrimeR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, DECIPHER, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, pwalign, zlibbioc. | | OpenStats | Unclaimed | | | oposSOM | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, biomaRt, graph, zlibbioc. | | oppar | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocParallel, BiocSingular, Biostrings, DelayedArray, DelayedMatrixStats, GSEABase, GSVA, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, annotate, assorthead, beachmat, graph, rhdf5, rhdf5filters, sparseMatrixStats, zlibbioc. | | oppti | Unclaimed | Incomplete Bioc dependencies: limma. | | optimalFlow | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore, flowMeans. | | OPWeight | Unclaimed | Incomplete Bioc dependencies: qvalue. | | OrderedList | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, twilight. | | ORFhunteR | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | ORFik | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, rtracklayer, txdbmaker, zlibbioc. | | Organism.dplyr | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | OrganismDbi | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, graph, rtracklayer, txdbmaker, zlibbioc. | | orthogene | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, DelayedArray, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, XVector, ggtree, treeio, zlibbioc. | | orthos | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocParallel, BiocVersion, Biostrings, DelayedArray, ExperimentHub, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, basilisk, basilisk.utils, dir.expiry, rhdf5, rhdf5filters, zlibbioc. | | OSAT | Unclaimed | | | Oscope | Unclaimed | Incomplete Bioc dependencies: BiocParallel, EBSeq. | | OTUbase | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pwalign, zlibbioc. | | OUTRIDER | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, pcaMethods, rtracklayer, txdbmaker, zlibbioc. | | OutSplice | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | OVESEG | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, zlibbioc. | | PAA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, annotate, edgeR, genefilter, limma, sva, zlibbioc. | | packFinder | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | padma | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | PADOG | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, limma, zlibbioc. | | pageRank | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, CNEr, DelayedArray, DirichletMultinomial, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TFBSTools, UCSC.utils, XVector, annotate, motifmatchr, pwalign, rtracklayer, seqLogo, zlibbioc. | | PAIRADISE | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | paircompviz | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Rgraphviz, graph. | | pairedGSEA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, DESeq2, DEXSeq, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, biomaRt, edgeR, fgsea, genefilter, geneplotter, limma, sva, zlibbioc. | | pairkat | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | pandaR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | panelcn.mops | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, cn.mops, zlibbioc. | | PanomiR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DOSE, GOSemSim, GSEABase, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, clusterProfiler, enrichplot, fgsea, ggtree, graph, limma, multtest, preprocessCore, qvalue, treeio, zlibbioc. | | panp | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, affy, affyio, preprocessCore, zlibbioc. | | PANR | Unclaimed | Incomplete Bioc dependencies: RedeR. | | parglms | Unclaimed | Incomplete Bioc dependencies: BiocGenerics. | | parody | Unclaimed | | | partCNV | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocStyle, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | PAST | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, qvalue, rtracklayer, zlibbioc. | | Path2PPI | Unclaimed | | | pathifier | Unclaimed | | | pathlinkR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, ComplexHeatmap, DOSE, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, clusterProfiler, enrichplot, fgsea, ggtree, qvalue, treeio, zlibbioc. | | PathNet | Unclaimed | | | PathoStat | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, BiocStyle, Biostrings, ComplexHeatmap, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomformat, edgeR, limma, multtest, phyloseq, rhdf5, rhdf5filters, zlibbioc. | | pathRender | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, Rgraphviz, S4Vectors, UCSC.utils, XVector, graph, zlibbioc. | | pathview | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, KEGGgraph, Rgraphviz, S4Vectors, UCSC.utils, XVector, graph, zlibbioc. | | pathwayPCA | Unclaimed | | | pcaExplorer | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationForge, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, Category, DESeq2, DOSE, DelayedArray, GOSemSim, GOstats, GSEABase, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, RBGL, Rgraphviz, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, biomaRt, clusterProfiler, enrichplot, fgsea, genefilter, ggtree, goseq, graph, limma, mosdef, qvalue, rtracklayer, topGO, treeio, txdbmaker, zlibbioc. | | pcaMethods | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | PCAN | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | PCAtools | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, BiocSingular, DelayedArray, DelayedMatrixStats, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SparseArray, XVector, assorthead, beachmat, sparseMatrixStats, zlibbioc. | | pdInfoBuilder | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affxparser, affyio, oligo, oligoClasses, preprocessCore, zlibbioc. | | PeacoQC | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ComplexHeatmap, DelayedArray, IRanges, MatrixGenerics, RBGL, RProtoBufLib, Rgraphviz, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, XVector, cytolib, flowCore, flowWorkspace, graph, ncdfFlow, zlibbioc. | | peakPantheR | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, zlibbioc. | | PECA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, DNAcopy, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, ROTS, S4Vectors, UCSC.utils, XVector, affy, affyio, annotate, aroma.light, genefilter, limma, preprocessCore, zlibbioc. | | peco | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, scater, scuttle, zlibbioc. | | Pedixplorer | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, S4Vectors. | | pengls | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | PepSetTest | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, zlibbioc. | | PepsNMR | Unclaimed | | | pepStat | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, limma, zlibbioc. | | pepXMLTab | Unclaimed | | | periodicDNA | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | pfamAnalyzeR | Unclaimed | | | pgca | Unclaimed | | | pgxRpi | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | phantasus | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DESeq2, DelayedArray, GEOquery, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, apeglm, edgeR, fgsea, limma, phantasusLite, rhdf5, rhdf5client, rhdf5filters, zlibbioc. | | phantasusLite | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, XVector, rhdf5client, zlibbioc. | | PharmacoGx | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, BumpyMatrix, CoreGx, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, fgsea, limma, marray, piano, zlibbioc. | | PhenoGeneRanker | Unclaimed | | | phenomis | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, MultiDataSet, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biodb, biodbChebi, limma, ropls, zlibbioc. | | phenopath | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | phenoTest | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, Category, GSEABase, GenomeInfoDb, Heatplus, IRanges, KEGGREST, MatrixGenerics, RBGL, S4Vectors, UCSC.utils, XVector, annotate, biomaRt, genefilter, graph, hopach, limma, zlibbioc. | | PhenStat | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, graph. | | philr | Unclaimed | Incomplete Bioc dependencies: ggtree, treeio. | | PhIPData | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | phosphonormalizer | Unclaimed | | | PhosR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, pcaMethods, preprocessCore, zlibbioc. | | PhyloProfile | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocStyle, BiocVersion, Biostrings, ExperimentHub, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, bioDist, zlibbioc. | | phyloseq | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, Rhdf5lib, S4Vectors, UCSC.utils, XVector, biomformat, multtest, rhdf5, rhdf5filters, zlibbioc. | | piano | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, fgsea, limma, marray. | | pickgene | Unclaimed | | | PICS | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | Pigengene | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, BiocStyle, Biostrings, DOSE, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, ReactomePA, Rgraphviz, S4Vectors, UCSC.utils, XVector, clusterProfiler, enrichplot, fgsea, ggtree, graph, graphite, impute, preprocessCore, qvalue, treeio, zlibbioc. | | PING | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, PICS, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, zlibbioc. | | pipeComp | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, limma, metapod, scater, scran, scuttle, zlibbioc. | | pipeFrame | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | PIPETS | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | Pirat | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, basilisk, basilisk.utils, dir.expiry, zlibbioc. | | PIUMA | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | planet | Unclaimed | | | planttfhunter | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | plasmut | Unclaimed | | | plgem | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | plier | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, affy, affyio, preprocessCore, zlibbioc. | | plotgardener | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, plyranges, rhdf5, rhdf5filters, rtracklayer, zlibbioc. | | plotGrouper | Unclaimed | | | PLPE | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, LPE. | | PLSDAbatch | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, BiocStyle, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, TreeSummarizedExperiment, UCSC.utils, XVector, mixOmics, treeio, zlibbioc. | | plyinteractions | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, InteractionSet, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, plyranges, rtracklayer, zlibbioc. | | plyranges | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | plyxp | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | pmm | Unclaimed | | | pmp | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, impute, pcaMethods, zlibbioc. | | PoDCall | Unclaimed | | | podkat | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | pogos | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rgraphviz, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, basilisk, basilisk.utils, dir.expiry, graph, ontoProc, zlibbioc. | | PolySTest | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, qvalue, zlibbioc. | | POMA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, ComplexHeatmap, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, RankProd, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, fgsea, genefilter, impute, limma, mixOmics, sva, zlibbioc. | | powerTCR | Unclaimed | | | POWSC | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MAST, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, zlibbioc. | | ppcseq | Unclaimed | Incomplete Bioc dependencies: edgeR, limma. | | PPInfer | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, STRINGdb, UCSC.utils, XVector, biomaRt, fgsea, graph, zlibbioc. | | pqsfinder | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | pram | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | prebs | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, BiocStyle, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, RPA, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, biomformat, multtest, phyloseq, preprocessCore, rhdf5, rhdf5filters, zlibbioc. | | preciseTAD | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DNAcopy, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, aCGH, affy, affyio, limma, multtest, preprocessCore, rCGH, rtracklayer, zlibbioc. | | PREDA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, multtest, zlibbioc. | | preprocessCore | Unclaimed | | | primirTSS | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, CNEr, DelayedArray, DirichletMultinomial, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, GenomicScores, Gviz, HDF5Array, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TFBSTools, UCSC.utils, VariantAnnotation, XVector, annotate, biomaRt, biovizBase, ensembldb, pwalign, rhdf5, rhdf5filters, rtracklayer, seqLogo, zlibbioc. | | PrInCE | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, zlibbioc. | | proActiv | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, rtracklayer, txdbmaker, zlibbioc. | | proBAMr | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, rtracklayer, txdbmaker, zlibbioc. | | PROcess | Unclaimed | Incomplete Bioc dependencies: Icens. | | procoil | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, kebabs, zlibbioc. | | proDA | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | profileplyr | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, ChIPseeker, ComplexHeatmap, DOSE, DelayedArray, EnrichedHeatmap, GOSemSim, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, chipseq, enrichplot, fgsea, ggtree, preprocessCore, pwalign, qvalue, rGREAT, rtracklayer, soGGi, treeio, zlibbioc. | | profileScoreDist | Unclaimed | Incomplete Bioc dependencies: BiocGenerics. | | progeny | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, decoupleR. | | projectR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, fgsea, limma. | | pRoloc | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MLInterfaces, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, annotate, biomaRt, genefilter, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, zlibbioc. | | pRolocGUI | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MLInterfaces, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, annotate, biomaRt, genefilter, impute, limma, mzID, mzR, pRoloc, pcaMethods, preprocessCore, vsn, zlibbioc. | | PROMISE | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GSEABase, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, graph, zlibbioc. | | PRONE | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, Biostrings, ComplexHeatmap, DESeq2, DEqMS, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, NormalyzerDE, POMA, PSMatch, ProtGenerics, QFeatures, ROTS, RankProd, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, annotate, edgeR, fgsea, genefilter, impute, limma, mixOmics, mzID, mzR, pcaMethods, preprocessCore, sva, vsn, zlibbioc. | | PROPER | Unclaimed | Incomplete Bioc dependencies: edgeR, limma. | | PROPS | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, annotate, edgeR, genefilter, limma, sva, zlibbioc. | | Prostar | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DAPAR, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, zlibbioc. | | proteinProfiles | Unclaimed | | | ProteoDisco | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, cleaver, rtracklayer, zlibbioc. | | ProteoMM | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, biomaRt, zlibbioc. | | protGear | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, affy, affyio, annotate, genefilter, limma, preprocessCore, vsn, zlibbioc. | | ProtGenerics | Unclaimed | | | psichomics | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, bumphunter, derfinder, derfinderHelper, edgeR, limma, qvalue, recount, rtracklayer, zlibbioc. | | PSMatch | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, ProtGenerics, QFeatures, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | ptairMS | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, rhdf5, rhdf5filters, vsn, zlibbioc. | | puma | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affxparser, affy, affyio, oligo, oligoClasses, preprocessCore, zlibbioc. | | PureCN | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DNAcopy, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rhdf5, rhdf5filters, rtracklayer, zlibbioc. | | pvac | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, affy, affyio, preprocessCore, zlibbioc. | | pvca | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, affy, affyio, limma, preprocessCore, vsn, zlibbioc. | | Pviz | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, zlibbioc. | | pwalign | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | PWMEnrich | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, seqLogo, zlibbioc. | | qckitfastq | Unclaimed | Incomplete Bioc dependencies: RSeqAn, seqTools, zlibbioc. | | qcmetrics | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, S4Vectors. | | QDNAseq | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, CGHbase, CGHcall, DNAcopy, GenomeInfoDb, GenomicRanges, IRanges, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, impute, limma, marray, zlibbioc. | | QFeatures | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, ProtGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | qmtools | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MsCoreUtils, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, zlibbioc. | | qpcrNorm | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, affy, affyio, limma, preprocessCore, zlibbioc. | | qpgraph | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rgraphviz, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, graph, rtracklayer, zlibbioc. | | qPLEXanalyzer | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, zlibbioc. | | qsea | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, HMMcopy, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, rtracklayer, zlibbioc. | | qsmooth | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, genefilter, limma, sva, zlibbioc. | | QSutils | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, pwalign, zlibbioc. | | qsvaR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, genefilter, limma, sva, zlibbioc. | | QTLExperiment | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | Qtlizer | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | quantiseqr | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, preprocessCore, zlibbioc. | | quantro | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, bumphunter, genefilter, illuminaio, limma, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | quantsmooth | Unclaimed | | | QuasR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rbowtie, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, pwalign, rtracklayer, txdbmaker, zlibbioc. | | QuaternaryProd | Unclaimed | | | QUBIC | Unclaimed | | | qusage | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, limma. | | qvalue | Unclaimed | | | R3CPET | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, ggbio, graph, rtracklayer, txdbmaker, zlibbioc. | | r3Cseq | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, qvalue, rtracklayer, zlibbioc. | | R453Plus1Toolbox | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, pwalign, rtracklayer, zlibbioc. | | R4RNA | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | RadioGx | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, BumpyMatrix, CoreGx, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, fgsea, limma, marray, piano, zlibbioc. | | raer | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | RaggedExperiment | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | RAIDS | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DNAcopy, DelayedArray, GENESIS, GWASTools, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SNPRelate, SeqArray, SeqVarTools, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, ensembldb, gdsfmt, quantsmooth, rtracklayer, zlibbioc. | | rain | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, multtest. | | ramr | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | ramwas | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, zlibbioc. | | randPack | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | randRotation | Unclaimed | | | RankProd | Unclaimed | | | RAREsim | Unclaimed | | | RareVariantVis | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, GenomicScores, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rhdf5, rhdf5filters, rtracklayer, zlibbioc. | | Rarr | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, DelayedArray, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, XVector, zlibbioc. | | rawDiag | Unclaimed | Incomplete Bioc dependencies: BiocParallel, rawrr. | | rawrr | Unclaimed | | | RbcBook1 | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, graph. | | Rbec | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, dada2, pwalign, zlibbioc. | | RBGL | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, graph. | | RBioFormats | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, EBImage, S4Vectors. | | RBioinf | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, graph. | | rBiopaxParser | Unclaimed | | | rBLAST | Unclaimed | Incomplete Bioc dependencies: BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | RBM | Unclaimed | Incomplete Bioc dependencies: limma, marray. | | Rbowtie | Unclaimed | | | Rbowtie2 | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, zlibbioc. | | rbsurv | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | Rbwa | Unclaimed | | | RCAS | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, genomation, impute, rtracklayer, seqLogo, seqPattern, txdbmaker, zlibbioc. | | RCASPAR | Unclaimed | | | rcellminer | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | rCGH | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DNAcopy, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, aCGH, affy, affyio, limma, multtest, preprocessCore, rtracklayer, zlibbioc. | | RcisTarget | Unclaimed | Incomplete Bioc dependencies: AUCell, AnnotationDbi, Biobase, BiocGenerics, Biostrings, DelayedArray, DelayedMatrixStats, GSEABase, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, graph, sparseMatrixStats, zlibbioc. | | RCM | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, Rhdf5lib, S4Vectors, UCSC.utils, XVector, biomformat, edgeR, limma, multtest, phyloseq, rhdf5, rhdf5filters, zlibbioc. | | Rcollectl | Unclaimed | | | Rcpi | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | RCSL | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | Rcwl | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, S4Vectors, basilisk, basilisk.utils, dir.expiry. | | RcwlPipelines | Unclaimed | Incomplete Bioc dependencies: BiocFileCache, BiocGenerics, BiocParallel, Rcwl, S4Vectors, basilisk, basilisk.utils, dir.expiry. | | RCX | Unclaimed | | | RCy3 | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, graph. | | RCyjs | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BrowserViz, graph. | | Rdisop | Unclaimed | | | RDRToolbox | Unclaimed | | | ReactomeGSA | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | ReactomePA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DOSE, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, enrichplot, fgsea, ggtree, graph, graphite, qvalue, treeio, zlibbioc. | | ReadqPCR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | REBET | Unclaimed | Incomplete Bioc dependencies: ASSET. | | rebook | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocStyle, dir.expiry, graph. | | receptLoss | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | reconsi | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, Rhdf5lib, S4Vectors, UCSC.utils, XVector, biomformat, multtest, phyloseq, rhdf5, rhdf5filters, zlibbioc. | | recount | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, bumphunter, derfinder, derfinderHelper, limma, qvalue, rtracklayer, zlibbioc. | | recount3 | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | recountmethylation | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, basilisk, basilisk.utils, bumphunter, dir.expiry, genefilter, illuminaio, limma, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | recoup | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, rtracklayer, txdbmaker, zlibbioc. | | RedeR | Unclaimed | | | RedisParam | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | REDseq | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, ChIPpeakAnno, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, InteractionSet, KEGGREST, MatrixGenerics, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, ensembldb, graph, multtest, pwalign, regioneR, rtracklayer, universalmotif, zlibbioc. | | RegEnrich | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, BiocSet, BiocStyle, Biostrings, DESeq2, DOSE, DelayedArray, GOSemSim, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, fgsea, impute, limma, preprocessCore, qvalue, zlibbioc. | | regionalpcs | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, BiocSingular, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, PCAtools, S4Arrays, S4Vectors, ScaledMatrix, SparseArray, UCSC.utils, XVector, assorthead, beachmat, sparseMatrixStats, zlibbioc. | | RegionalST | Unclaimed | Incomplete Bioc dependencies: BayesSpace, Biobase, BiocFileCache, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, BiocStyle, DelayedArray, EpiDISH, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, TOAST, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, fgsea, limma, metapod, rhdf5, rhdf5filters, scater, scran, scuttle, zlibbioc. | | regioneR | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | regioneReloaded | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, regioneR, rtracklayer, zlibbioc. | | regionReport | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, BiocStyle, Biostrings, DEFormats, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, bumphunter, derfinder, derfinderHelper, edgeR, limma, qvalue, rtracklayer, zlibbioc. | | regsplice | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | regutools | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, RCy3, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, graph, rtracklayer, zlibbioc. | | REMP | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, bumphunter, genefilter, illuminaio, impute, limma, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | Repitools | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DNAcopy, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, rtracklayer, zlibbioc. | | ReportingTools | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationForge, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, Category, DESeq2, DelayedArray, GOstats, GSEABase, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rgraphviz, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, annotate, biomaRt, biovizBase, edgeR, ensembldb, genefilter, ggbio, graph, limma, rtracklayer, txdbmaker, zlibbioc. | | RepViz | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, biomaRt, zlibbioc. | | ResidualMatrix | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, DelayedArray, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, XVector, zlibbioc. | | RESOLVE | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MutationalPatterns, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | retrofit | Unclaimed | | | ReUseData | Unclaimed | Incomplete Bioc dependencies: BiocFileCache, BiocGenerics, BiocParallel, Rcwl, RcwlPipelines, S4Vectors, basilisk, basilisk.utils, dir.expiry. | | rexposome | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, S4Vectors, impute, pcaMethods. | | rfaRm | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | Rfastp | Unclaimed | Incomplete Bioc dependencies: Rhtslib, zlibbioc. | | rfPred | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, zlibbioc. | | rGADEM | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, seqLogo, zlibbioc. | | rGenomeTracks | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | RgnTX | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, regioneR, rtracklayer, zlibbioc. | | rgoslin | Unclaimed | | | RGraph2js | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, graph. | | Rgraphviz | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, graph. | | rGREAT | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | RGSEA | Unclaimed | Incomplete Bioc dependencies: BiocGenerics. | | rgsepd | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, goseq, rtracklayer, txdbmaker, zlibbioc. | | rhdf5 | Unclaimed | Incomplete Bioc dependencies: Rhdf5lib, rhdf5filters. | | rhdf5client | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, DelayedArray, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, XVector, zlibbioc. | | rhdf5filters | Unclaimed | Incomplete Bioc dependencies: Rhdf5lib. | | Rhdf5lib | Unclaimed | | | rhinotypeR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | Rhisat2 | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SGSeq, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, rtracklayer, txdbmaker, zlibbioc. | | Rhtslib | Unclaimed | Incomplete Bioc dependencies: zlibbioc. | | RiboCrypt | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ORFik, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, rtracklayer, txdbmaker, zlibbioc. | | RiboDiPA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, qvalue, rtracklayer, txdbmaker, zlibbioc. | | RiboProfiling | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, ggbio, graph, rtracklayer, txdbmaker, zlibbioc. | | ribor | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Rhdf5lib, S4Vectors, rhdf5, rhdf5filters. | | riboSeqR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, baySeq, edgeR, limma, seqLogo, zlibbioc. | | ribosomeProfilingQC | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, CNEr, DelayedArray, DirichletMultinomial, EDASeq, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, RUVSeq, Rhtslib, Rsamtools, Rsubread, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, TFBSTools, UCSC.utils, XVector, annotate, aroma.light, biomaRt, edgeR, limma, motifStack, pwalign, rtracklayer, seqLogo, txdbmaker, zlibbioc. | | rifi | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | rifiComparative | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DTA, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | RImmPort | Unclaimed | | | RITAN | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BgeeDB, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, STRINGdb, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, basilisk, basilisk.utils, dir.expiry, ensembldb, graph, rhdf5, rhdf5filters, rtracklayer, topGO, zellkonverter, zlibbioc. | | RIVER | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | RJMCMCNucleosomes | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, consensusSeekeR, rtracklayer, zlibbioc. | | RLassoCox | Unclaimed | | | RLMM | Unclaimed | | | Rmagpie | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | RMassBank | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, ChemmineR, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, zlibbioc. | | rmelting | Unclaimed | | | Rmmquant | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, BiocStyle, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, apeglm, rtracklayer, zlibbioc. | | rmspc | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | RNAAgeCalc | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, bumphunter, derfinder, derfinderHelper, impute, limma, qvalue, recount, rtracklayer, zlibbioc. | | RNAdecay | Unclaimed | | | rnaEditr | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, bumphunter, limma, rtracklayer, zlibbioc. | | RNAmodR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, Modstrings, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, txdbmaker, zlibbioc. | | RNAmodR.AlkAnilineSeq | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, Modstrings, ProtGenerics, RNAmodR, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, txdbmaker, zlibbioc. | | RNAmodR.ML | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, Modstrings, ProtGenerics, RNAmodR, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, txdbmaker, zlibbioc. | | RNAmodR.RiboMethSeq | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, Modstrings, ProtGenerics, RNAmodR, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, txdbmaker, zlibbioc. | | RNAsense | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, qvalue, zlibbioc. | | rnaseqcomp | Unclaimed | | | RNAseqCovarImpute | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, edgeR, limma. | | RNASeqPower | Unclaimed | | | RnaSeqSampleSize | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, bumphunter, derfinder, derfinderHelper, edgeR, limma, qvalue, recount, rtracklayer, zlibbioc. | | RnBeads | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, bumphunter, genefilter, illuminaio, limma, methylumi, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | Rnits | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, affy, affyio, impute, limma, preprocessCore, qvalue, zlibbioc. | | roar | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | roastgsa | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, limma. | | ROC | Unclaimed | | | ROCpAI | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | RolDE | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, ROTS, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, qvalue, zlibbioc. | | rols | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | ROntoTools | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, KEGGgraph, Rgraphviz, S4Vectors, UCSC.utils, XVector, graph, zlibbioc. | | ropls | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, MultiDataSet, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, zlibbioc. | | ROSeq | Unclaimed | Incomplete Bioc dependencies: edgeR, limma. | | ROTS | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | RPA | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocStyle, Biostrings, GenomeInfoDb, IRanges, Rhdf5lib, S4Vectors, UCSC.utils, XVector, affy, affyio, biomformat, multtest, phyloseq, preprocessCore, rhdf5, rhdf5filters, zlibbioc. | | rprimer | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | RProtoBufLib | Unclaimed | | | rpx | Unclaimed | Incomplete Bioc dependencies: BiocFileCache. | | Rqc | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, BiocStyle, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biovizBase, ensembldb, pwalign, rtracklayer, zlibbioc. | | rqt | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, MultiDataSet, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, multtest, ropls, zlibbioc. | | rqubic | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | rRDP | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | RRHO | Unclaimed | | | rrvgo | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GOSemSim, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | Rsamtools | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, Rhtslib, S4Vectors, UCSC.utils, XVector, zlibbioc. | | rsbml | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, graph. | | rScudo | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | rsemmed | Unclaimed | | | RSeqAn | Unclaimed | | | Rsubread | Unclaimed | | | RSVSim | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pwalign, zlibbioc. | | rSWeeP | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | RTCA | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | RTCGA | Unclaimed | | | RTCGAToolbox | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocBaseUtils, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicDataCommons, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, RaggedExperiment, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TCGAutils, UCSC.utils, XVector, rtracklayer, zlibbioc. | | RTN | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, RedeR, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, minet, viper, zlibbioc. | | RTNduals | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, RTN, RedeR, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, minet, viper, zlibbioc. | | RTNsurvival | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, RTN, RTNduals, RedeR, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, minet, viper, zlibbioc. | | RTopper | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, limma, multtest. | | Rtpca | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | rtracklayer | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | Rtreemix | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, graph. | | rTRM | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | rTRMui | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MotifDb, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rTRM, rtracklayer, zlibbioc. | | runibic | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | RUVcorr | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel. | | RUVnormalize | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | RUVSeq | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, EDASeq, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, aroma.light, biomaRt, edgeR, limma, pwalign, rtracklayer, zlibbioc. | | Rvisdiff | Unclaimed | Incomplete Bioc dependencies: edgeR, limma. | | RVS | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, snpStats, zlibbioc. | | rWikiPathways | Unclaimed | | | S4Arrays | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, IRanges, S4Vectors. | | S4Vectors | Unclaimed | Incomplete Bioc dependencies: BiocGenerics. | | safe | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | sagenhaft | Unclaimed | | | SAIGEgds | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, SeqArray, UCSC.utils, XVector, gdsfmt, zlibbioc. | | sampleClassifier | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, MGFM, MGFR, S4Vectors, UCSC.utils, XVector, annotate, biomaRt, zlibbioc. | | SamSPECTRAL | Unclaimed | | | sangeranalyseR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocStyle, Biostrings, DECIPHER, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, pwalign, sangerseqR, zlibbioc. | | sangerseqR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, pwalign, zlibbioc. | | SANTA | Unclaimed | | | SARC | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocBaseUtils, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, RaggedExperiment, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, multtest, plyranges, rtracklayer, zlibbioc. | | sarks | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | saseR | Unclaimed | Incomplete Bioc dependencies: ASpli, AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocStyle, Biostrings, DESeq2, DEXSeq, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, annotate, biomaRt, biovizBase, edgeR, ensembldb, genefilter, geneplotter, limma, rtracklayer, txdbmaker, zlibbioc. | | satuRn | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, zlibbioc. | | SBGNview | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, KEGGgraph, MatrixGenerics, Rgraphviz, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, graph, pathview, zlibbioc. | | SBMLR | Unclaimed | | | SC3 | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | Scale4C | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | ScaledMatrix | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, DelayedArray, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, XVector, zlibbioc. | | SCAN.UPC | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GEOquery, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affxparser, affy, affyio, annotate, edgeR, genefilter, limma, oligo, oligoClasses, preprocessCore, sva, zlibbioc. | | scanMiR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, pwalign, seqLogo, zlibbioc. | | scanMiRApp | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, ensembldb, pwalign, rtracklayer, scanMiR, seqLogo, txdbmaker, zlibbioc. | | scAnnotatR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | SCANVIS | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | SCArray | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, BiocSingular, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, gdsfmt, sparseMatrixStats, zlibbioc. | | SCArray.sat | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, BiocSingular, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SCArray, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, gdsfmt, sparseMatrixStats, zlibbioc. | | scater | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, scuttle, zlibbioc. | | scatterHatch | Unclaimed | | | scBFA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, genefilter, limma, zinbwave, zlibbioc. | | SCBN | Unclaimed | | | scBubbletree | Unclaimed | Incomplete Bioc dependencies: BiocParallel, ggtree, treeio. | | scCB2 | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, DelayedMatrixStats, DropletUtils, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, edgeR, limma, rhdf5, rhdf5filters, scuttle, sparseMatrixStats, zlibbioc. | | scClassify | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, Cepo, DelayedArray, DelayedMatrixStats, GSEABase, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, graph, hopach, limma, rhdf5, rhdf5filters, sparseMatrixStats, zlibbioc. | | sccomp | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | scDataviz | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, RProtoBufLib, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, cytolib, flowCore, zlibbioc. | | scDblFinder | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocNeighbors, BiocParallel, BiocSingular, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, limma, metapod, rtracklayer, scater, scran, scuttle, zlibbioc. | | scDD | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, EBSeq, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, limma, metapod, scran, scuttle, zlibbioc. | | scDDboost | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, EBSeq, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, Oscope, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | scde | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, edgeR, limma, pcaMethods. | | scDesign3 | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | scDiagnostics | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, bluster, zlibbioc. | | scDotPlot | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, ggtree, scater, scuttle, treeio, zlibbioc. | | scds | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | SCFA | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | scFeatureFilter | Unclaimed | | | scFeatures | Unclaimed | Incomplete Bioc dependencies: AUCell, AnnotationDbi, AnnotationFilter, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocNeighbors, BiocParallel, BiocSingular, Biostrings, DelayedArray, DelayedMatrixStats, GSEABase, GSVA, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SingleCellSignalR, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, annotate, assorthead, beachmat, bluster, edgeR, ensembldb, graph, limma, metapod, multtest, rhdf5, rhdf5filters, rtracklayer, scran, scuttle, sparseMatrixStats, zlibbioc. | | scGPS | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | schex | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | scHOT | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | scider | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | scifer | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DECIPHER, GenomeInfoDb, IRanges, RProtoBufLib, Rhdf5lib, S4Vectors, UCSC.utils, XVector, basilisk, basilisk.utils, cytolib, dir.expiry, flowCore, pwalign, sangerseqR, zlibbioc. | | scmap | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | scMerge | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicRanges, IRanges, M3Drop, MatrixGenerics, ResidualMatrix, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, batchelor, beachmat, bluster, edgeR, limma, metapod, scater, scran, scuttle, sparseMatrixStats, zlibbioc. | | scMET | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocStyle, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | scmeth | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotatr, assorthead, beachmat, bsseq, limma, regioneR, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, zlibbioc. | | scMitoMut | Unclaimed | Incomplete Bioc dependencies: Rhdf5lib, rhdf5, rhdf5filters, zlibbioc. | | scMultiSim | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | SCnorm | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | scone | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, EDASeq, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, RUVSeq, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, aroma.light, biomaRt, edgeR, limma, pwalign, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, zlibbioc. | | Sconify | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | SCOPE | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DNAcopy, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | scoreInvHap | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, snpStats, zlibbioc. | | scoup | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | scp | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IHW, IRanges, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, ProtGenerics, QFeatures, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, lpsymphony, metapod, zlibbioc. | | scPCA | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, DelayedArray, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SparseArray, XVector, zlibbioc. | | scPipe | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, DropletUtils, GenomeInfoDb, GenomicAlignments, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, Rhdf5lib, Rhtslib, Rsamtools, Rsubread, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, basilisk, basilisk.utils, beachmat, biomaRt, dir.expiry, edgeR, limma, rhdf5, rhdf5filters, rtracklayer, scuttle, sparseMatrixStats, zlibbioc. | | scran | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, limma, metapod, scuttle, zlibbioc. | | scrapper | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocNeighbors, DelayedArray, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, XVector, assorthead, beachmat, zlibbioc. | | scReClassify | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | scRecover | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | screenCounter | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | ScreenR | Unclaimed | Incomplete Bioc dependencies: edgeR, limma. | | scRepertoire | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | scRNAseqApp | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, TrajectoryUtils, UCSC.utils, XVector, rhdf5, rhdf5filters, rtracklayer, slingshot, zlibbioc. | | scruff | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, Rsubread, S4Arrays, S4Vectors, ShortRead, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, ggbio, graph, pwalign, rtracklayer, txdbmaker, zlibbioc. | | scry | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, zlibbioc. | | scShapes | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | scTensor | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationForge, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocParallel, BiocStyle, BiocVersion, Biostrings, Category, DOSE, DelayedArray, GOSemSim, GOstats, GSEABase, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MeSHDbi, RBGL, ReactomePA, Rgraphviz, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, enrichplot, fgsea, genefilter, ggtree, graph, graphite, meshr, qvalue, schex, treeio, zlibbioc. | | scTGIF | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocStyle, Biostrings, DelayedArray, GSEABase, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, graph, schex, zlibbioc. | | scTHI | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | scTreeViz | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocNeighbors, BiocParallel, BiocSingular, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, biomaRt, bluster, bumphunter, edgeR, ensembldb, epivizr, epivizrData, epivizrServer, graph, limma, metapod, rtracklayer, scater, scran, scuttle, txdbmaker, zlibbioc. | | scuttle | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, zlibbioc. | | scviR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, basilisk, basilisk.utils, beachmat, dir.expiry, limma, scater, scuttle, zlibbioc. | | SDAMS | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, qvalue, zlibbioc. | | seahtrue | Unclaimed | | | sechm | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | segmenter | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, ChIPseeker, ComplexHeatmap, DOSE, DelayedArray, GOSemSim, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, bamsignals, enrichplot, fgsea, ggtree, qvalue, rtracklayer, treeio, zlibbioc. | | segmentSeq | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, baySeq, edgeR, limma, pwalign, zlibbioc. | | selectKSigs | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HiLDA, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | SELEX | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | SemDist | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, zlibbioc. | | semisup | Unclaimed | | | seq.hotSPOT | Unclaimed | | | seq2pathway | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, biomaRt, impute, preprocessCore, zlibbioc. | | seqArchR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | seqArchRplus | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, ChIPseeker, DOSE, DelayedArray, EBImage, GOSemSim, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, clusterProfiler, enrichplot, fgsea, ggtree, heatmaps, qvalue, rtracklayer, seqArchR, seqPattern, treeio, zlibbioc. | | SeqArray | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, gdsfmt, zlibbioc. | | seqCAT | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | seqcombo | Unclaimed | | | SeqGate | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | SeqGSEA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, zlibbioc. | | seqLogo | Unclaimed | | | seqPattern | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | seqsetvis | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, rtracklayer, zlibbioc. | | SeqSQC | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, ExperimentHub, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, S4Vectors, SNPRelate, UCSC.utils, XVector, gdsfmt, zlibbioc. | | seqTools | Unclaimed | Incomplete Bioc dependencies: zlibbioc. | | SeqVarTools | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, SeqArray, UCSC.utils, XVector, gdsfmt, zlibbioc. | | sesame | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocParallel, BiocVersion, Biostrings, DelayedArray, ExperimentHub, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, preprocessCore, zlibbioc. | | SEtools | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, ComplexHeatmap, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, genefilter, limma, sechm, sva, zlibbioc. | | sevenbridges | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, S4Vectors. | | sevenC | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, InteractionSet, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | SGCP | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationForge, Biobase, BiocGenerics, Biostrings, Category, DelayedArray, GOstats, GSEABase, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, RBGL, Rgraphviz, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, genefilter, graph, zlibbioc. | | SGSeq | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | SharedObject | Unclaimed | Incomplete Bioc dependencies: BiocGenerics. | | shiny.gosling | Unclaimed | | | shinyepico | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, bumphunter, genefilter, illuminaio, limma, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | shinyMethyl | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, bumphunter, genefilter, illuminaio, limma, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | ShortRead | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pwalign, zlibbioc. | | SIAMCAT | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, Rhdf5lib, S4Vectors, UCSC.utils, XVector, biomformat, multtest, phyloseq, rhdf5, rhdf5filters, zlibbioc. | | SICtools | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, zlibbioc. | | SigCheck | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MLInterfaces, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, genefilter, zlibbioc. | | sigFeature | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, RBGL, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biocViews, graph, zlibbioc. | | SigFuge | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | siggenes | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, multtest. | | sights | Unclaimed | Incomplete Bioc dependencies: qvalue. | | signatureSearch | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocParallel, BiocVersion, Biostrings, DOSE, DelayedArray, ExperimentHub, GOSemSim, GSEABase, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, clusterProfiler, enrichplot, fgsea, ggtree, graph, qvalue, rhdf5, rhdf5filters, treeio, zlibbioc. | | signeR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | SigsPack | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | sigsquared | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | SIM | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, globaltest, quantsmooth, zlibbioc. | | SIMAT | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ProtGenerics, Rhdf5lib, mzR. | | SimBu | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, basilisk, basilisk.utils, biomformat, dir.expiry, multtest, phyloseq, rhdf5, rhdf5filters, sparseMatrixStats, zlibbioc. | | SIMD | Unclaimed | Incomplete Bioc dependencies: edgeR, limma, methylMnM. | | SimFFPE | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, zlibbioc. | | similaRpeak | Unclaimed | | | SIMLR | Unclaimed | | | simona | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, ComplexHeatmap, IRanges, S4Vectors. | | simPIC | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, scuttle, zlibbioc. | | simpleSeg | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocParallel, DelayedArray, EBImage, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, cytomapper, rhdf5, rhdf5filters, zlibbioc. | | simplifyEnrichment | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, ComplexHeatmap, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, simona, zlibbioc. | | sincell | Unclaimed | | | SingleCellAlleleExperiment | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | SingleCellExperiment | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | SingleCellSignalR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, limma, metapod, multtest, scran, scuttle, zlibbioc. | | singleCellTK | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocNeighbors, BiocParallel, BiocSingular, BiocVersion, Biostrings, ComplexHeatmap, DESeq2, DelayedArray, DelayedMatrixStats, DropletUtils, ExperimentHub, GSEABase, GSVA, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, M3Drop, MAST, MatrixGenerics, ProtGenerics, ResidualMatrix, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SingleR, SparseArray, SpatialExperiment, SummarizedExperiment, TSCAN, TrajectoryUtils, UCSC.utils, XVector, alabaster.base, alabaster.matrix, alabaster.ranges, alabaster.sce, alabaster.schemas, alabaster.se, annotate, assorthead, basilisk, basilisk.utils, batchelor, beachmat, bluster, celda, dir.expiry, edgeR, eds, ensembldb, genefilter, ggtree, graph, gypsum, limma, metapod, multtest, rhdf5, rhdf5filters, rtracklayer, scDblFinder, scMerge, scater, scds, scran, scuttle, sparseMatrixStats, sva, treeio, tximport, zellkonverter, zinbwave, zlibbioc. | | SingleMoleculeFootprinting | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, QuasR, Rbowtie, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, plyranges, pwalign, rtracklayer, txdbmaker, zlibbioc. | | SingleR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, sparseMatrixStats, zlibbioc. | | singscore | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GSEABase, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, graph, limma, zlibbioc. | | SiPSiC | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | sitadela | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, rtracklayer, txdbmaker, zlibbioc. | | sitePath | Unclaimed | Incomplete Bioc dependencies: ggtree, treeio. | | sizepower | Unclaimed | | | sketchR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, XVector, basilisk, basilisk.utils, dir.expiry, zlibbioc. | | skewr | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, ROC, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, annotate, bumphunter, genefilter, illuminaio, limma, lumi, methylumi, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, wateRmelon, zlibbioc. | | slalom | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, DelayedArray, GSEABase, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, graph, zlibbioc. | | slingshot | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, TrajectoryUtils, UCSC.utils, XVector, zlibbioc. | | SLqPCR | Unclaimed | | | SMAD | Unclaimed | | | smartid | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, sparseMatrixStats, zlibbioc. | | SMITE | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BioNet, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, goseq, graph, rtracklayer, txdbmaker, zlibbioc. | | smoothclust | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, sparseMatrixStats, zlibbioc. | | SNAGEE | Unclaimed | | | snapcount | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | snifter | Unclaimed | Incomplete Bioc dependencies: basilisk, basilisk.utils, dir.expiry. | | snm | Unclaimed | | | SNPediaR | Unclaimed | | | SNPhood | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | SNPRelate | Unclaimed | Incomplete Bioc dependencies: gdsfmt. | | snpStats | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, zlibbioc. | | soGGi | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, chipseq, preprocessCore, pwalign, rtracklayer, zlibbioc. | | SomaticSignatures | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, ggbio, graph, pcaMethods, rtracklayer, txdbmaker, zlibbioc. | | SOMNiBUS | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotatr, assorthead, beachmat, bsseq, limma, regioneR, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, zlibbioc. | | SpaceMarkers | Unclaimed | Incomplete Bioc dependencies: qvalue. | | Spaniel | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, DelayedMatrixStats, DropletUtils, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, limma, metapod, rhdf5, rhdf5filters, scater, scran, scuttle, sparseMatrixStats, zlibbioc. | | SpaNorm | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, limma, metapod, scran, scuttle, zlibbioc. | | sparrow | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, BiocSet, Biostrings, ComplexHeatmap, DelayedArray, DelayedMatrixStats, GSEABase, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, UCSC.utils, XVector, annotate, edgeR, graph, limma, sparseMatrixStats, zlibbioc. | | SparseArray | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, IRanges, MatrixGenerics, S4Arrays, S4Vectors, XVector, zlibbioc. | | sparseMatrixStats | Unclaimed | Incomplete Bioc dependencies: MatrixGenerics. | | sparsenetgls | Unclaimed | | | SparseSignatures | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | spaSim | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | SpatialCPie | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | spatialDE | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, basilisk, basilisk.utils, dir.expiry, zlibbioc. | | SpatialDecon | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, GenomeInfoDb, GeomxTools, IRanges, NanoStringNCTools, S4Vectors, UCSC.utils, XVector, zlibbioc. | | SpatialExperiment | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | SpatialFeatureExperiment | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocNeighbors, BiocParallel, DelayedArray, DelayedMatrixStats, DropletUtils, EBImage, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, edgeR, limma, rhdf5, rhdf5filters, scuttle, sparseMatrixStats, zlibbioc. | | spatialHeatmap | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, genefilter, limma, zlibbioc. | | SpatialOmicsOverlay | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, Biostrings, EBImage, GenomeInfoDb, GeomxTools, IRanges, NanoStringNCTools, RBioFormats, S4Vectors, UCSC.utils, XVector, zlibbioc. | | spatialSimGP | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | spatzie | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, CNEr, DelayedArray, DirichletMultinomial, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicInteractions, GenomicRanges, Gviz, IRanges, InteractionSet, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TFBSTools, UCSC.utils, VariantAnnotation, XVector, annotate, biomaRt, biovizBase, ensembldb, motifmatchr, pwalign, rtracklayer, seqLogo, zlibbioc. | | speckle | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | specL | Unclaimed | | | SpeCond | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | Spectra | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, IRanges, MetaboCoreUtils, MsCoreUtils, ProtGenerics, S4Vectors. | | SpectralTAD | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, HiCcompare, IRanges, InteractionSet, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rhdf5, rhdf5filters, zlibbioc. | | SpectraQL | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, IRanges, MetaboCoreUtils, MsCoreUtils, ProtGenerics, S4Vectors, Spectra. | | SPEM | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | SPIA | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, KEGGgraph, Rgraphviz, graph. | | SPIAT | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, dittoSeq, zlibbioc. | | spicyR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, ClassifyR, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, annotate, dcanr, genefilter, zlibbioc. | | spikeLI | Unclaimed | | | spiky | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | spillR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, CATALYST, ComplexHeatmap, ConsensusClusterPlus, DelayedArray, FlowSOM, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, RProtoBufLib, Rhdf5lib, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, cytolib, flowCore, scater, scuttle, zlibbioc. | | spkTools | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | splatter | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, edgeR, limma, scuttle, zlibbioc. | | SpliceWiz | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, DelayedMatrixStats, ExperimentHub, GenomeInfoDb, GenomicAlignments, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, genefilter, ompBAM, rhdf5, rhdf5filters, rtracklayer, sparseMatrixStats, zlibbioc. | | SplicingFactory | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | SplicingGraphs | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rgraphviz, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, graph, rtracklayer, zlibbioc. | | splineTimeR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GSEABase, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, graph, limma, zlibbioc. | | SPLINTER | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, pwalign, rtracklayer, seqLogo, zlibbioc. | | splots | Unclaimed | | | SPONGE | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, ComplexHeatmap, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, biomaRt, zlibbioc. | | spoon | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, nnSVG, scuttle, zlibbioc. | | SpotClean | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, rhdf5, rhdf5filters, zlibbioc. | | SPOTlight | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, sparseMatrixStats, zlibbioc. | | SpotSweeper | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocNeighbors, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, assorthead, escheR, zlibbioc. | | spqn | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | SPsimSeq | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomformat, edgeR, impute, limma, multtest, phyloseq, preprocessCore, rhdf5, rhdf5filters, zlibbioc. | | SQLDataFrame | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, DelayedArray, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, XVector, zlibbioc. | | squallms | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MassSpecWavelet, MatrixGenerics, MetaboCoreUtils, MsCoreUtils, MsExperiment, MsFeatures, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, Spectra, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, xcms, zlibbioc. | | sRACIPE | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | SRAdb | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, graph. | | sscu | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | sSeq | Unclaimed | | | ssize | Unclaimed | | | sSNAPPY | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, graph, graphite, limma, zlibbioc. | | ssPATHS | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | ssrch | Unclaimed | | | ssviz | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, zlibbioc. | | StabMap | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, zlibbioc. | | stageR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | standR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, EDASeq, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, RUVSeq, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, aroma.light, biomaRt, edgeR, limma, pwalign, rtracklayer, zlibbioc. | | STATegRa | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, affy, affyio, edgeR, limma, preprocessCore, zlibbioc. | | Statial | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocParallel, ComplexHeatmap, ConsensusClusterPlus, DelayedArray, FlowSOM, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, RProtoBufLib, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, cytolib, diffcyt, edgeR, flowCore, ggtree, hopach, limma, treeio, treekoR, zlibbioc. | | statTarget | Unclaimed | Incomplete Bioc dependencies: ROC, impute. | | stepNorm | Unclaimed | Incomplete Bioc dependencies: limma, marray. | | stJoincount | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | strandCheckR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | Streamer | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, RBGL, graph. | | STRINGdb | Unclaimed | | | struct | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rols, zlibbioc. | | Structstrings | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | structToolbox | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rols, struct, zlibbioc. | | StructuralVariantAnnotation | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, pwalign, rtracklayer, zlibbioc. | | SubCellBarCode | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | subSeq | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, qvalue. | | SUITOR | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | SummarizedExperiment | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, UCSC.utils, XVector, zlibbioc. | | Summix | Unclaimed | | | supersigs | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | surfaltr | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, biomaRt, msa, zlibbioc. | | SurfR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SPsimSeq, SingleCellExperiment, SparseArray, SummarizedExperiment, TCGAbiolinks, UCSC.utils, XVector, biomaRt, biomformat, edgeR, impute, limma, multtest, phyloseq, preprocessCore, rhdf5, rhdf5filters, zlibbioc. | | survClust | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | survcomp | Unclaimed | | | survtype | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | sva | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, annotate, edgeR, genefilter, limma, zlibbioc. | | svaNUMT | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, StructuralVariantAnnotation, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, pwalign, rtracklayer, zlibbioc. | | svaRetro | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, StructuralVariantAnnotation, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, pwalign, rtracklayer, zlibbioc. | | SVMDO | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DOSE, DelayedArray, GOSemSim, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, fgsea, qvalue, zlibbioc. | | SWATH2stats | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, biomaRt, zlibbioc. | | SwathXtend | Unclaimed | | | swfdr | Unclaimed | | | switchBox | Unclaimed | | | switchde | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | synapsis | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, EBImage. | | synapter | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, cleaver, impute, limma, multtest, mzID, mzR, pcaMethods, preprocessCore, qvalue, vsn, zlibbioc. | | synergyfinder | Unclaimed | | | SynExtend | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, DECIPHER, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | synlet | Unclaimed | Incomplete Bioc dependencies: RankProd. | | SynMut | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | syntenet | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | systemPipeR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pwalign, zlibbioc. | | systemPipeShiny | Unclaimed | | | systemPipeTools | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, ggtree, treeio, zlibbioc. | | tadar | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rtracklayer, zlibbioc. | | TADCompare | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, HiCcompare, IRanges, InteractionSet, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rhdf5, rhdf5filters, zlibbioc. | | tanggle | Unclaimed | Incomplete Bioc dependencies: ggtree, treeio. | | TAPseq | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | target | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | TargetDecoy | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ProtGenerics, Rhdf5lib, mzID, mzR. | | TargetScore | Unclaimed | | | TargetSearch | Unclaimed | | | TCC | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, ROC, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | TCGAbiolinks | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, zlibbioc. | | TCGAutils | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocBaseUtils, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicDataCommons, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, RaggedExperiment, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | TCseq | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | TDbasedUFE | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, tximport, zlibbioc. | | TDbasedUFEadv | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DOSE, GOSemSim, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, RTCGA, S4Vectors, STRINGdb, TDbasedUFE, UCSC.utils, XVector, enrichplot, fgsea, ggtree, qvalue, treeio, tximport, zlibbioc. | | TEKRABber | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SCBN, SparseArray, SummarizedExperiment, UCSC.utils, XVector, apeglm, biomaRt, rtracklayer, zlibbioc. | | TENxIO | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocIO, DelayedArray, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rhdf5, rhdf5filters, zlibbioc. | | tenXplore | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rgraphviz, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, basilisk, basilisk.utils, dir.expiry, graph, ontoProc, zlibbioc. | | TEQC | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, zlibbioc. | | ternarynet | Unclaimed | Incomplete Bioc dependencies: BiocParallel. | | terraTCGAdata | Unclaimed | Incomplete Bioc dependencies: AnVIL, AnVILBase, AnVILGCP, AnnotationDbi, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicDataCommons, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, RaggedExperiment, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, TCGAutils, UCSC.utils, XVector, rtracklayer, zlibbioc. | | TFARM | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | TFBSTools | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, CNEr, DelayedArray, DirichletMultinomial, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, pwalign, rtracklayer, seqLogo, zlibbioc. | | TFEA.ChIP | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, rtracklayer, zlibbioc. | | TFHAZ | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ORFik, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, rtracklayer, txdbmaker, zlibbioc. | | TFutils | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, GSEABase, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, annotate, graph, zlibbioc. | | tidybulk | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, preprocessCore, zlibbioc. | | tidyCoverage | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | tidyFlowCore | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | tidyomics | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, InteractionSet, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, nullranges, plyranges, preprocessCore, rtracklayer, tidySingleCellExperiment, tidySummarizedExperiment, tidybulk, zlibbioc. | | tidysbml | Unclaimed | | | tidySingleCellExperiment | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | tidySpatialExperiment | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, tidySingleCellExperiment, zlibbioc. | | tidySummarizedExperiment | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | tidytof | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RProtoBufLib, Rhdf5lib, S4Vectors, cytolib, flowCore. | | tigre | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, zlibbioc. | | TileDBArray | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, DelayedArray, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, XVector, zlibbioc. | | tilingArray | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, affy, affyio, annotate, genefilter, limma, preprocessCore, vsn, zlibbioc. | | timecourse | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, limma, marray. | | timeOmics | Unclaimed | Incomplete Bioc dependencies: BiocParallel, mixOmics. | | timescape | Unclaimed | | | TIN | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, DNAcopy, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, aroma.light, impute, preprocessCore, zlibbioc. | | TissueEnrich | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, DelayedArray, GSEABase, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, graph, zlibbioc. | | TitanCNA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | tkWidgets | Unclaimed | Incomplete Bioc dependencies: DynDoc, widgetTools. | | tLOH | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | TMixClust | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, SPEM. | | TMSig | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, ComplexHeatmap, GSEABase, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, graph, limma, zlibbioc. | | TnT | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | TOAST | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, EpiDISH, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, zlibbioc. | | tomoda | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | tomoseqr | Unclaimed | Incomplete Bioc dependencies: BiocFileCache. | | TOP | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, Biostrings, ClassifyR, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, dcanr, genefilter, limma, zlibbioc. | | topconfects | Unclaimed | | | topdownr | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MatrixGenerics, MsCoreUtils, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, zlibbioc. | | topGO | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, graph, zlibbioc. | | ToxicoGx | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, BumpyMatrix, CoreGx, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, fgsea, limma, marray, piano, zlibbioc. | | TPP | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, biobroom, limma. | | TPP2D | Unclaimed | Incomplete Bioc dependencies: BiocParallel, limma. | | tpSVG | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | tracktables | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, Rhtslib, Rsamtools, S4Vectors, UCSC.utils, XVector, zlibbioc. | | trackViewer | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, InteractionSet, KEGGREST, MatrixGenerics, ProtGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, rhdf5, rhdf5filters, rtracklayer, txdbmaker, zlibbioc. | | tradeSeq | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, TrajectoryUtils, UCSC.utils, XVector, edgeR, limma, slingshot, zlibbioc. | | TrajectoryGeometry | Unclaimed | | | TrajectoryUtils | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | transcriptogramer | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, RedeR, S4Vectors, UCSC.utils, XVector, biomaRt, graph, limma, topGO, zlibbioc. | | transcriptR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, chipseq, pwalign, rtracklayer, zlibbioc. | | transformGamPoi | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, glmGamPoi, rhdf5, rhdf5filters, sparseMatrixStats, zlibbioc. | | transite | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | tRanslatome | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DESeq2, DelayedArray, GOSemSim, GenomeInfoDb, GenomicRanges, Heatplus, IRanges, KEGGREST, MatrixGenerics, RankProd, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, anota, edgeR, graph, limma, multtest, qvalue, topGO, zlibbioc. | | transmogR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | transomics2cytoscape | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, RCy3, S4Vectors, UCSC.utils, XVector, graph, zlibbioc. | | traseR | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | TreeAndLeaf | Unclaimed | Incomplete Bioc dependencies: RedeR. | | treeclimbR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, ComplexHeatmap, ConsensusClusterPlus, DelayedArray, FlowSOM, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, RProtoBufLib, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, TreeSummarizedExperiment, UCSC.utils, XVector, cytolib, diffcyt, edgeR, flowCore, ggtree, limma, treeio, zlibbioc. | | treeio | Unclaimed | | | treekoR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, ComplexHeatmap, ConsensusClusterPlus, DelayedArray, FlowSOM, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, RProtoBufLib, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, cytolib, diffcyt, edgeR, flowCore, ggtree, hopach, limma, treeio, zlibbioc. | | TreeSummarizedExperiment | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, treeio, zlibbioc. | | TREG | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | Trendy | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | TRESS | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | tricycle | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, scater, scuttle, zlibbioc. | | trigger | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, annotate, edgeR, genefilter, limma, qvalue, sva, zlibbioc. | | trio | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, multtest, siggenes. | | triplex | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, UCSC.utils, XVector, zlibbioc. | | tripr | Unclaimed | | | tRNA | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, Modstrings, S4Vectors, Structstrings, UCSC.utils, XVector, zlibbioc. | | tRNAdbImport | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, IRanges, Modstrings, S4Vectors, Structstrings, UCSC.utils, XVector, tRNA, zlibbioc. | | tRNAscanImport | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Modstrings, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, Structstrings, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, tRNA, zlibbioc. | | TRONCO | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Rgraphviz, graph. | | TSAR | Unclaimed | | | TSCAN | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, TrajectoryUtils, UCSC.utils, XVector, zlibbioc. | | ttgsea | Unclaimed | | | TTMap | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | TurboNorm | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, affy, affyio, convert, limma, marray, preprocessCore, zlibbioc. | | TVTB | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, limma, rtracklayer, zlibbioc. | | tweeDEseq | Unclaimed | Incomplete Bioc dependencies: cqn, edgeR, limma. | | twilight | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | twoddpcr | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, S4Vectors. | | txcutr | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, rtracklayer, txdbmaker, zlibbioc. | | txdbmaker | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, rtracklayer, zlibbioc. | | tximeta | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomaRt, ensembldb, rtracklayer, txdbmaker, tximport, zlibbioc. | | tximport | Unclaimed | | | UCell | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, zlibbioc. | | UCSC.utils | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, S4Vectors. | | Ularcirc | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Organism.dplyr, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, plotgardener, plyranges, rhdf5, rhdf5filters, rtracklayer, zlibbioc. | | UMI4Cats | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rbowtie2, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, pwalign, regioneR, rtracklayer, zlibbioc. | | uncoverappLib | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, Gviz, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, graph, rtracklayer, txdbmaker, zlibbioc. | | UNDO | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | unifiedWMWqPCR | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, limma. | | UniProt.ws | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, zlibbioc. | | Uniquorn | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | universalmotif | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, Biostrings, GenomeInfoDb, IRanges, MatrixGenerics, S4Vectors, UCSC.utils, XVector, zlibbioc. | | updateObject | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, S4Vectors. | | UPDhmm | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | uSORT | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, RBGL, biocViews, graph, limma, monocle. | | VAExprs | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocNeighbors, BiocParallel, BiocSingular, DeepPINCS, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, scater, scuttle, ttgsea, zlibbioc. | | VanillaICE | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affyio, crlmm, illuminaio, limma, oligoClasses, preprocessCore, rtracklayer, zlibbioc. | | VarCon | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | variancePartition | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, limma. | | VariantAnnotation | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | VariantExperiment | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, Biostrings, DelayedArray, DelayedDataFrame, GDSArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SNPRelate, SeqArray, SparseArray, SummarizedExperiment, UCSC.utils, XVector, gdsfmt, zlibbioc. | | VariantFiltering | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, GenomicScores, Gviz, HDF5Array, IRanges, KEGGREST, MatrixGenerics, ProtGenerics, RBGL, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, graph, rhdf5, rhdf5filters, rtracklayer, zlibbioc. | | VariantTools | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | VaSP | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, ballgown, edgeR, genefilter, limma, rtracklayer, sva, zlibbioc. | | vbmp | Unclaimed | | | VCFArray | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. | | VDJdive | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | VegaMC | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, biomaRt, zlibbioc. | | velociraptor | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, BiocSingular, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, ScaledMatrix, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, assorthead, basilisk, basilisk.utils, beachmat, dir.expiry, scuttle, zellkonverter, zlibbioc. | | veloviz | Unclaimed | | | VennDetail | Unclaimed | | | VERSO | Unclaimed | | | vidger | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | viper | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics. | | VisiumIO | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocIO, DelayedArray, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, TENxIO, UCSC.utils, XVector, rhdf5, rhdf5filters, zlibbioc. | | vissE | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, Biobase, BiocFileCache, BiocGenerics, BiocVersion, Biostrings, ExperimentHub, GSEABase, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, annotate, graph, zlibbioc. | | Voyager | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocNeighbors, BiocParallel, DelayedArray, DelayedMatrixStats, DropletUtils, EBImage, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SpatialFeatureExperiment, SummarizedExperiment, UCSC.utils, XVector, assorthead, beachmat, bluster, edgeR, limma, rhdf5, rhdf5filters, scuttle, sparseMatrixStats, zlibbioc. | | VplotR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | vsclust | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, qvalue, zlibbioc. | | vsn | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, affy, affyio, limma, preprocessCore, zlibbioc. | | vtpnet | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationHub, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, BiocVersion, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, graph, gwascat, rtracklayer, snpStats, zlibbioc. | | vulcan | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, ChIPpeakAnno, DESeq2, DelayedArray, DiffBind, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, GreyListChIP, IRanges, InteractionSet, KEGGREST, MatrixGenerics, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, ShortRead, SparseArray, SummarizedExperiment, UCSC.utils, XVector, apeglm, biomaRt, csaw, edgeR, ensembldb, graph, limma, metapod, multtest, pwalign, regioneR, rtracklayer, systemPipeR, universalmotif, viper, zlibbioc. | | waddR | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocFileCache, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | wateRmelon | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, ROC, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, annotate, bumphunter, genefilter, illuminaio, limma, lumi, methylumi, minfi, multtest, preprocessCore, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | wavClusteR | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | weaver | Unclaimed | | | webbioc | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, KEGGREST, S4Vectors, UCSC.utils, XVector, affy, affyio, annaffy, gcrma, limma, multtest, preprocessCore, qvalue, vsn, zlibbioc. | | weitrix | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, DelayedArray, DelayedMatrixStats, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, sparseMatrixStats, topconfects, zlibbioc. | | widgetTools | Unclaimed | | | wiggleplotr | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, rtracklayer, zlibbioc. | | wpm | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | wppi | Unclaimed | Incomplete Bioc dependencies: OmnipathR. | | Wrench | Unclaimed | Incomplete Bioc dependencies: limma. | | xcms | Unclaimed | Incomplete Bioc dependencies: AnnotationFilter, Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MSnbase, MassSpecWavelet, MatrixGenerics, MetaboCoreUtils, MsCoreUtils, MsExperiment, MsFeatures, MultiAssayExperiment, PSMatch, ProtGenerics, QFeatures, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, Spectra, SummarizedExperiment, UCSC.utils, XVector, affy, affyio, impute, limma, mzID, mzR, pcaMethods, preprocessCore, vsn, zlibbioc. | | xcore | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, edgeR, limma, zlibbioc. | | XDE | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, Biostrings, GeneMeta, GenomeInfoDb, IRanges, KEGGREST, MatrixGenerics, S4Vectors, UCSC.utils, XVector, annotate, genefilter, multtest, siggenes, zlibbioc. | | xenLite | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocFileCache, BiocGenerics, BiocIO, DelayedArray, EBImage, GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SpatialExperiment, SummarizedExperiment, TENxIO, UCSC.utils, XVector, rhdf5, rhdf5filters, zlibbioc. | | Xeva | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocBaseUtils, BiocGenerics, BiocParallel, BumpyMatrix, ComplexHeatmap, CoreGx, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, MultiAssayExperiment, PharmacoGx, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, fgsea, limma, marray, piano, zlibbioc. | | XINA | Unclaimed | Incomplete Bioc dependencies: STRINGdb. | | xmapbridge | Unclaimed | | | XNAString | Unclaimed | Incomplete Bioc dependencies: BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges, IRanges, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, pwalign, rtracklayer, zlibbioc. | | XVector | Unclaimed | Incomplete Bioc dependencies: BiocGenerics, IRanges, S4Vectors, zlibbioc. | | yamss | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, EBImage, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, ProtGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, limma, mzR, zlibbioc. | | YAPSA | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, AnnotationFilter, BSgenome, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, ComplexHeatmap, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, OrganismDbi, ProtGenerics, RBGL, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SomaticSignatures, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, biomaRt, biovizBase, ensembldb, ggbio, graph, gtrellis, pcaMethods, rtracklayer, txdbmaker, zlibbioc. | | yarn | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, DelayedMatrixStats, GEOquery, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, HDF5Array, IRanges, KEGGREST, MatrixGenerics, Rhdf5lib, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, biomaRt, bumphunter, edgeR, genefilter, illuminaio, limma, minfi, multtest, preprocessCore, quantro, rhdf5, rhdf5filters, rtracklayer, siggenes, sparseMatrixStats, zlibbioc. | | zellkonverter | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, basilisk, basilisk.utils, dir.expiry, zlibbioc. | | zenith | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocFileCache, BiocGenerics, BiocParallel, Biostrings, DelayedArray, EnrichmentBrowser, GSEABase, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, KEGGgraph, MatrixGenerics, Rgraphviz, S4Arrays, S4Vectors, SPIA, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, graph, graphite, limma, pathview, safe, variancePartition, zlibbioc. | | zFPKM | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, zlibbioc. | | zinbwave | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, Biobase, BiocGenerics, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, S4Arrays, S4Vectors, SingleCellExperiment, SparseArray, SummarizedExperiment, UCSC.utils, XVector, annotate, edgeR, genefilter, limma, zlibbioc. | | zitools | Unclaimed | Incomplete Bioc dependencies: Biobase, BiocGenerics, BiocParallel, Biostrings, DESeq2, DelayedArray, GenomeInfoDb, GenomicRanges, IRanges, MatrixGenerics, Rhdf5lib, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, XVector, biomformat, multtest, phyloseq, rhdf5, rhdf5filters, zlibbioc. | | zlibbioc | Unclaimed | | | ZygosityPredictor | Unclaimed | Incomplete Bioc dependencies: AnnotationDbi, BSgenome, Biobase, BiocGenerics, BiocIO, BiocParallel, Biostrings, DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges, KEGGREST, MatrixGenerics, Rhtslib, Rsamtools, S4Arrays, S4Vectors, SparseArray, SummarizedExperiment, UCSC.utils, VariantAnnotation, XVector, rtracklayer, zlibbioc. |

Bioconductor Software Binaries Built (0)

| Package | Status | Tarball | |-----------|----------|-----------|

Other Dependency Binaries (0)

| Package | Status | Tarball | |-----------|----------|-----------|

Owner

Name: Bioconductor
Login: Bioconductor
Kind: organization

Website: https://bioconductor.org
Repositories: 156
Profile: https://github.com/Bioconductor

Software for the analysis and comprehension of high-throughput genomic data

Committers

Last synced: 12 months ago

All Time

Total Commits: 67,248
Total Committers: 3
Avg Commits per committer: 22,416.0
Development Distribution Score (DDS): 0.001

Past Year

Commits: 7,812
Committers: 3
Avg Commits per committer: 2,604.0
Development Distribution Score (DDS): 0.002

Top Committers

Name	Email	Commits
github-actions	g**s@g**m	67,191
GitHub Action	a**n@g**m	32
Alexandru Mahmoud	m**u@g**m	25

Committer Domains (Top 20 + Academic)

github.com: 2

Issues and Pull Requests

Last synced: 12 months ago

All Time

Total issues: 1
Total pull requests: 0
Average time to close issues: about 1 hour
Average time to close pull requests: N/A
Total issue authors: 1
Total pull request authors: 0
Average comments per issue: 3.0
Average comments per pull request: 0
Merged pull requests: 0
Bot issues: 0
Bot pull requests: 0

Past Year

Issues: 1
Pull requests: 0
Average time to close issues: about 1 hour
Average time to close pull requests: N/A
Issue authors: 1
Pull request authors: 0
Average comments per issue: 3.0
Average comments per pull request: 0
Merged pull requests: 0
Bot issues: 0
Bot pull requests: 0

ecosyste.ms

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https://github.com/bioconductor/gha-build-rstudio-release-amd64

Science Score: 26.0%

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Unclaimed (2232)

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