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

CRAN CRAN downloads R build status codecov

Overview

The msigdbr R package provides Molecular Signatures Database (MSigDB) gene sets typically used with the Gene Set Enrichment Analysis (GSEA) software:

Installation

The package can be installed from CRAN.

install.packages("msigdbr")

Usage

The package data can be accessed using the msigdbr() function, which returns a data frame of gene sets and their member genes. For example, you can retrieve mouse genes from the C2 (curated) CGP (chemical and genetic perturbations) gene sets.

genesets = msigdbr(species = "Mus musculus", category = "C2", subcategory = "CGP")

Check the documentation website for more information.

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.