get_GO_gene_sets {gsEasy}

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.