gene_GO_terms: Gene Ontology annotation of genes

In ontologySimilarity: Calculating Ontological Similarities

Gene Ontology annotation of genes

Description

list object containing character vectors of term IDs of GO terms annotating each gene, named by gene. Users can select a list of annotations for a subset of the annotated genes using a character vector of gene symbols, e.g. gene_GO_terms[c("ACTN1", "TUBB1")], which can then be used in functions for calculating similarities, e.g. get_sim_grid. Note that these annotation vectors contain annotation from all major branches of the Gene Ontology, however one can simply extract the terms only relevant to one by calling the function in the ontologyIndex package: intersection_with_descendants.

Format

List of character vectors.

References

Annotation downloaded from Gene Ontology consortium website, http://geneontology.org/, dated 20/02/2024.

ontologySimilarity documentation built on May 29, 2024, 3:51 a.m.