https://github.com/bioconductor-source/variantexperiment
Science Score: 13.0%
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○CITATION.cff file
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○.zenodo.json file
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○Scientific vocabulary similarity
Low similarity (2.5%) to scientific vocabulary
Repository
Basic Info
- Host: GitHub
- Owner: bioconductor-source
- Language: R
- Default Branch: devel
- Size: 2.89 MB
Statistics
- Stars: 0
- Watchers: 2
- Forks: 0
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
VariantExperiment
VariantExperiment is a Bioconductor package for saving data in VCF/GDS format into RangedSummarizedExperiment object. The high-throughput genetic/genomic data are saved in GDSArray objects. The annotation data for features/samples are saved in DelayedDataFrame format with mono-dimensional GDSArray in each column. The on-disk representation of both assay data and annotation data achieves on-disk reading and processing and saves memory space significantly. The interface of RangedSummarizedExperiment data format enables easy and common manipulations for high-throughput genetic/genomic data with common SummarizedExperiment metaphor in R and Bioconductor.
Owner
- Name: (WIP DEV) Bioconductor Packages
- Login: bioconductor-source
- Kind: organization
- Email: maintainer@bioconductor.org
- Website: https://bioconductor.org
- Repositories: 1
- Profile: https://github.com/bioconductor-source
Source code for packages accepted into Bioconductor
GitHub Events
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Dependencies
- GenomicRanges * depends
- R >= 3.6.0 depends
- S4Vectors >= 0.21.24 depends
- SummarizedExperiment >= 1.13.0 depends
- Biostrings * imports
- DelayedArray * imports
- DelayedDataFrame >= 1.6.0 imports
- GDSArray >= 1.11.1 imports
- IRanges * imports
- SNPRelate * imports
- SeqArray * imports
- gdsfmt * imports
- methods * imports
- stats * imports
- tools * imports
- utils * imports
- BiocStyle * suggests
- knitr * suggests
- markdown * suggests
- rmarkdown * suggests
- testthat * suggests