appendKEGG: Add KEGG pathway derived gene sets to a collection

In DavisLaboratory/msigdb: An ExperimentHub Package for the Molecular Signatures Database (MSigDB)

Add KEGG pathway derived gene sets to a collection

Description

This function adds gene sets derived from KEGG pathways to the MSigDB data stored in this package. Direct user-end download from the MSigDB is required to ensure KEGG licenses are adhered to.

Usage

appendKEGG(gsc, version = getMsigdbVersions())

Arguments

gsc	a GeneSetCollection object, containing MSigDB genesets in the form of GeneSet objects.
version	a character, stating the version of MSigDB to be retrieved (should be >= 7.2). See getMsigdbVersions().

Value

a GeneSetCollection object, storing gene sets from the MSigDB including the downloaded KEGG gene sets.

DavisLaboratory/msigdb documentation built on July 18, 2023, 7:54 p.m.