https://github.com/bioconductor-source/rcistarget
Science Score: 13.0%
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○CITATION.cff file
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✓codemeta.json file
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○.zenodo.json file
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○Academic publication links
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○Scientific vocabulary similarity
Low similarity (5.2%) to scientific vocabulary
Repository
Basic Info
- Host: GitHub
- Owner: bioconductor-source
- Language: HTML
- Default Branch: devel
- Size: 85.9 MB
Statistics
- Stars: 0
- Watchers: 2
- Forks: 0
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
RcisTarget
RcisTarget is an R-package to identify transcription factor (TF) binding motifs over-represented on a gene list.
Availability:
The newest stable version of RcisTarget is available in Bioconductor. The package also contains a tutorial (vignette) with information on how to run RcisTarget and how to interprete its results.
This Github repository is meant mostly for development. "Use at your own risk" :-). Developers are welcome to contribute.
Databases:
The databases required to run (R)cisTarget are available at https://resources.aertslab.org/cistarget/ (see the vignette for details). Alternative mirror: https://resources-mirror.aertslab.org/cistarget/.
A tutorial on how to create databases with different settings (e.g. new species) is available at https://github.com/aertslab/createcisTargetdatabases
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
- R >= 3.4 depends
- doMC * enhances
- doRNG * enhances
- AUCell >= 1.1.6 imports
- BiocGenerics * imports
- GSEABase * imports
- GenomeInfoDb * imports
- GenomicRanges * imports
- R.utils * imports
- S4Vectors * imports
- SummarizedExperiment * imports
- arrow >= 2.0.0 imports
- data.table * imports
- dplyr * imports
- graphics * imports
- methods * imports
- stats * imports
- tibble * imports
- utils * imports
- zoo * imports
- Biobase * suggests
- BiocParallel * suggests
- BiocStyle * suggests
- DT * suggests
- RcisTarget.hg19.motifDBs.cisbpOnly.500bp * suggests
- doParallel * suggests
- foreach * suggests
- gplots * suggests
- igraph * suggests
- knitr * suggests
- rmarkdown * suggests
- rtracklayer * suggests
- testthat * suggests
- visNetwork * suggests