GOGeneSets {HTSanalyzeR} | R Documentation

## Create a list of gene sets based on GO terms

### Description

This function creates a list of gene sets based on GO terms. It is species-specific, and returns a list of gene sets, each of which is a character vector of Entrez identifiers.

### Usage

    GOGeneSets(species = "Dm", ontologies = "MF")

### Arguments

`species` | a single character value specifying a choice of 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"

### Details

This function relies on the following packages: GSEABase, GO.db, and either org.Hs.eg.db, org.Mm.eg.db, org.Rn.eg.db, org.Ce.eg.db, org.Dm.eg.db.

### Value

a list of gene sets, with names as GO IDs. Each gene set is a character vector of Entrez identifiers.

### Author(s)

Camille Terfve

### See Also

`KeggGeneSets`

### Examples

    library(GO.db)
    library(org.Dm.eg.db)
    Dm_GO_CC<-GOGeneSets(species="Dm",ontologies=c("CC"))

[Package HTSanalyzeR version 2.38.0 Index]