msigdb.collections: Msigdb Collections

In mw201608/msigdb: MSigDB Gene Set Collections

Description

Character vector of available gene set collections

Details

The Molecular Signatures Database (MSigDB) gene sets are divided into 9 major collections (C1-8 and H), and several sub-collections: c1.all: positional gene sets;

c2.cgp: chemical and genetic perturbations;

c2.cp: Canonical pathways (including BioCarta, KEGG and Reactome gene sets);

c3.mir: microRNA targets;

c3.tft: transcription factor targets;

c4.cgn: cancer gene neighborhoods;

c4.cm: cancer modules;

c5.go.bp: GO biological process;

c5.go.cc: GO cellular component;

c5.go.mf: GO molecular function;

c5.hpo: human phenotype ontology;

c6.all: oncogenic signatures;

c7.immunesigdb: immunologic signatures;

c7.vax: vaccine reponse gene sets

c8.all: cell type signature gene sets

h.all: hallmark gene sets, specific well-defined biological states or processes.

See Also

msigdb.version, msigdb.genesets

Examples

msigdb.collections

mw201608/msigdb documentation built on Aug. 13, 2021, 10:42 p.m.