dslice (version 1.1.3)

load_gmt: Load gene set file

Description

Load gene set from .gmt file

Usage

load_gmt(file)

Arguments

file

Name of .gmt file which contains gene sets. Should be a tab-separated text file. Each row is a gene set. The first column is gene set name and the second is its description. Remaining columns are gene symbols of genes in this set.

Value

• A list with components:
• set_name
  Vector of gene set names.
• set_description
  Vector of gene set descriptions.
• gene_symbol
  List of gene symbols in each gene set.

Examples

# Gene set files are available after registration at Broad institute GSEA website
# http://www.broadinstitute.org/gsea

filename <- "C2.gmt"
geneset <- load_gmt(filename)