R Observatory: Metrics for msigdbr version 26.1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

msigdbr

26.1.0

MSigDB Gene Sets for Multiple Organisms in a Tidy Data Format

13packages depend

252.5Kdownloads / year

95.8%test coverage

13/13checks pass

Overview

About

Maintained by Igor DolgalevFirst published 2018-04-1214 releasesCRAN page ↗GitHub ↗

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, Castanza et al. 2023 doi:10.1038/s41592-023-02014-7) as an R data frame. 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.

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("msigdbr", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("igordot/msigdbr")

Development version from igordot/msigdbr. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-msigdbr

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-msigdbr

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-msigdbr

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 1.2 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.49

95.8%

Coverage · measured lines

100%

Documentation · exports

10

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 71 wordsVignettesNopkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 25%

Downloads

252.5K

CRAN downloads in the past year

Rank #731 · ~692/day · ~21K/mo

Releases R versions

Daily download trend is not available in this view yet.

26.1K30 days

73.9K90 days

252.5K1 year

Compare downloads with other packages →

Also on1.1K r2u4 autocran15K conda_forge30 c2d4u

Repository

GitHub ↗ igordot/msigdbr

90Stars

13Forks

0Open issues

0Open PRs

16Releases

161Commits

3Contributors

genomicsmsigdbgene-setspathwaysgseapathway-analysisenrichment-analysis

161 commits · Last activity 2026-08-03 · +3.4% stars, 30d

Stars over time

2026-07-14 · 872026-08-06 · 90

Repository practices

Upstream repositoryBeta

4 development-tooling and community-health practices detected across 3 families in the upstream repository

Checks run against github.com/igordot/msigdbr on 2026-08-03.

Continuous integration (1)

GitHub Actions

CRAN release process (2)

cran-comments.mdrevdep/

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

12 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.1

Imports (10)

assertthat babelgene curl dplyr lifecyclemethodsrlang tibble tidyselecttools

LinkingTo (0)

none

Suggests (4)

knitr rmarkdown roxygen2 testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

13direct

0indirect

GSDA autoGO netgsa pathfindR scITD BioUtils CAESAR.Suite GeneNMF IOBR OlinkAnalyze craftgrn grandR spatialGE

Code & Tests

People & History

People (1)

Maintainer (1)

Igor Dolgalev

Author, Maintainer

Authors (1)

Igor Dolgalev

Author, Maintainer

Package Timeline

14 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
26.1.0Latest
2026-03-12 · current release · diff ↗
25.1.1
2025-11-24 · diff ↗
25.1.0
2025-07-03 · diff ↗
24.1.0
2025-05-13 · diff ↗
10.0.2
2025-04-15 · diff ↗
R
R 4.5.0 released · 2025-04-11
10.0.1
2025-03-19 · diff ↗
10.0.0
2025-03-12 · diff ↗
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
7.5.1
2022-03-30 · diff ↗
R
R 4.1.0 released · 2021-05-18
7.4.1
2021-05-05 · diff ↗
7.2.1
2020-10-02 · diff ↗

Show 8 earlier events

7.1.1
2020-05-14 · diff ↗
R
R 4.0.0 released · 2020-04-24
7.0.1
2019-09-04 · diff ↗
R
R 3.6.0 released · 2019-04-26
6.2.1
2018-10-09 · diff ↗
R
R 3.5.0 released · 2018-04-23
6.1.1
2018-04-12
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2018-04-12
Total releases: 14 / 8 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 4.1
Download size: 10 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Genomics, Proteomics, Metabolomics, Transcriptomics, and Other Omics

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("msigdbr")

Format

Dolgalev, I. (2026). msigdbr: MSigDB Gene Sets for Multiple Organisms in a Tidy Data Format (Version 26.1.0) [Computer software]. https://doi.org/10.32614/CRAN.package.msigdbr

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for msigdbr version 26.1.0 [Data set]. HJJB, LLC. Data release v2026-08-08. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-08, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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