parseMsigdb {RCAS} | R Documentation |
A function to import gene sets downloaded from the Molecular Signatures Database (MSIGDB)
parseMsigdb(filePath)
filePath |
Path to a file containing gene sets from MSIGDB. The gene ids must be in Entrez format. |
A list of vectors where each vector consists of a set of Entrez gene ids
#First Download gene sets (with Entrez Ids) from MSIGDB database #from \url{http://software.broadinstitute.org/gsea/msigdb/collections.jsp#C2} input <- system.file('extdata', 'msigdb_test.gmt', package='RCAS') msigDB <- parseMsigdb (filePath = input)