msigdbr: MSigDB Gene Sets for Multiple Organisms in a Tidy Data Format

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 [aut, cre]
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

Documentation:

Reference manual:	msigdbr.pdf
Vignettes:	Introduction to msigdbr

Downloads:

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 dependencies:

Reverse depends:	GSDA, massiveGST
Reverse imports:	AutoPipe, CatsCradle, ChromSCape, escape, hypeR, MAGeCKFlute, netgsa, pathfindR, POMA, projectR, RVA, scFeatures, scITD, scTGIF, singleCellTK, zenith
Reverse suggests:	CAESAR.Suite, CRISPRball, EnrichmentBrowser, epiregulon.extra, fgsea, gCrisprTools, GeneNMF, GenomicSuperSignature, grandR, hacksig, OlinkAnalyze, pairedGSEA, Platypus, rGREAT, sparrow, tidybulk

Linking:

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