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Provides the 'Molecular Signatures Database' (MSigDB) gene sets typically used with the 'Gene Set Enrichment Analysis' (GSEA) software (Subramanian et al. 2005 <doi:10.1073/pnas.0506580102>, Liberzon et al. 2015 <doi:10.1016/j.cels.2015.12.004>) in a standard R data frame with key-value pairs. The package includes the human genes as listed in MSigDB as well as the corresponding symbols and IDs for frequently studied model organisms such as mouse, rat, pig, fly, and yeast.
Version: | 7.5.1 |
Depends: | R (≥ 3.4) |
Imports: | babelgene, dplyr (≥ 0.7.0), magrittr, rlang, tibble, tidyselect |
Suggests: | knitr, rmarkdown, testthat |
Published: | 2022-03-30 |
DOI: | 10.32614/CRAN.package.msigdbr |
Author: | Igor Dolgalev |
Maintainer: | Igor Dolgalev <igor.dolgalev at nyumc.org> |
BugReports: | https://github.com/igordot/msigdbr/issues |
License: | MIT + file LICENSE |
URL: | https://igordot.github.io/msigdbr/ |
NeedsCompilation: | no |
Materials: | README NEWS |
In views: | Omics |
CRAN checks: | msigdbr results |
Reference manual: | msigdbr.pdf |
Vignettes: |
Introduction to msigdbr |
Package source: | msigdbr_7.5.1.tar.gz |
Windows binaries: | r-devel: msigdbr_7.5.1.zip, r-release: msigdbr_7.5.1.zip, r-oldrel: msigdbr_7.5.1.zip |
macOS binaries: | r-release (arm64): msigdbr_7.5.1.tgz, r-oldrel (arm64): msigdbr_7.5.1.tgz, r-release (x86_64): msigdbr_7.5.1.tgz, r-oldrel (x86_64): msigdbr_7.5.1.tgz |
Old sources: | msigdbr archive |
Reverse depends: | GSDA, massiveGST |
Reverse imports: | ATACCoGAPS, AutoPipe, ChromSCape, escape, hypeR, MAGeCKFlute, netgsa, pathfindR, projectR, RVA, scFeatures, scITD, scTGIF, singleCellTK, zenith |
Reverse suggests: | CRISPRball, EnrichmentBrowser, epiregulon.extra, fgsea, gCrisprTools, GeneNMF, GenomicSuperSignature, grandR, hacksig, OlinkAnalyze, pairedGSEA, pareg, PDATK, rGREAT, simplifyEnrichment, sparrow, tidybulk |
Please use the canonical form https://CRAN.R-project.org/package=msigdbr to link to this page.
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
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