getGeneSets {escape} | R Documentation |
This function allows users to select libraries and specific gene.sets to form a GeneSetCollection that is a list of gene sets.
getGeneSets(species = "Homo sapiens", library = NULL, gene.sets = NULL)
species |
The scientific name of the species of interest in order to get correcent gene nomenclature |
library |
Individual collection(s) of gene sets, e.g. c("H", "C5"). See https://www.gsea-msigdb.org/gsea/msigdb/collections.jsp for all MSigDB collections. |
gene.sets |
Select gene sets or pathways, using specific names, example: pathways = c("HALLMARK_TNFA_SIGNALING_VIA_NFKB"). Will only be honored if library is set, too. |
A GeneSetCollection
object containing the requested GeneSet
objects.
Nick Borcherding, Jared Andrews
GS <- getGeneSets(library = "H")