getGo {phenoTest} | R Documentation |
This function creates a list of gene sets based on GO pathways terms. It is species-specific, and returns a list of gene sets, each of which is a character vector of Entrez gene identifiers.
This function is a wraper to the function GOGeneSets
from
getGo(species = "Dm", ontologies = "MF")
species |
a single character value specifying the species: "Dm" ("Drosophila_ melanogaster"), "Hs" ("Homo_sapiens"), "Rn" ("Rattus_norvegicus"), "Mm" ("Mus_musculus") or "Ce" ("Caenorhabditis_elegans")). |
ontologies |
a single character value or a character vector specifying an ontology or multiple ontologies. The current version provides the following choices: "BP", "CC" and "MF" |
This function relies on the following packages: GSEABase, GO.db.
a list of gene sets, with names as GO pathway IDs. Each gene set is a character vector of Entrez gene identifiers.
Evarist Planet.
getGo
#library(GO.db) #library(org.Hs.eg.db) #go.Hs <- getGo('Hs') #str(go.Hs) #go.Hs[1:2]