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Fetch Gene Ontology (GO) Gene Sets

Source: R/getGmt.R
getGoGmt.Rd

Fetches GO terms and their associated genes from a Bioconductor AnnotationDb package.

Usage

getGoGmt(
  speciesDb,
  ontology = "BP",
  minGmtSize = 10,
  maxGmtSize = 500,
  verbose = TRUE
)

Arguments

speciesDb

An AnnotationDb object for the target species (e.g., `org.Hs.eg.db`).

ontology

The GO ontology to fetch. One of "BP", "MF", or "CC".

minGmtSize

The minimum number of genes for a GO term to be included.

maxGmtSize

The maximum number of genes for a GO term to be included.

verbose

A logical value indicating whether to print progress messages.

Value

A named list where names are GO terms and values are character vectors of Entrez IDs.