get_GO_gene_sets: Create list of gene sets defined by GO term annotation

In gsEasy: Gene Set Enrichment Analysis in R

Create list of gene sets defined by GO term annotation

Description

Note, this function takes several minutes to execute.

Usage

get_GO_gene_sets(
  GO_annotation_file,
  GO_file = "http://purl.obolibrary.org/obo/go.obo",
  min_genes = 15,
  max_genes = 500,
  verbose = TRUE
)

Arguments

GO_annotation_file	File path of annotation file, which should contain a column of genes and a column of terms. Can be downloaded from at http://geneontology.org/gene-associations/gene_association.goa_human.gz.
GO_file	File path of gene ontology.
min_genes	Minimum number of genes in gene sets.
max_genes	Maximum number of genes in gene sets.
verbose	Print progress.

Value

List of character vectors of term IDs.

gsEasy documentation built on May 29, 2024, 5 a.m.