write_geneSets_to_gmt: Save a collection of gene-sets in a .gmt file format.

In massiveGST: Competitive Gene Sets Test with the Mann-Whitney-Wilcoxon Test

Save a collection of gene-sets in a .gmt file format.

Description

Write a collection of gene sets as arranged in this package in a gmt file format.

Usage

write_geneSets_to_gmt(gs, fileName)

Arguments

gs	a character vector of gene-sets
fileName	a character value; "gene_sets.gmt" (default)

Value

No return value.

Author(s)

Stefano M. Pagnotta

See Also

get_geneSets_from_msigdbr, get_geneSets_from_local_files

Examples

library(massiveGST)

# get the gene-sets
geneSets <- get_geneSets_from_msigdbr(category = "H", what = "gene_symbol")

# save the gene-sets
fname <- file.path(tempdir(), "hallmarks.gmt")
write_geneSets_to_gmt(geneSets, fileName = fname)

massiveGST documentation built on March 31, 2023, 8:59 p.m.