get_genes_by_GO {scPipe} | R Documentation

## Get genes related to certain GO terms from biomart database

### Description

Get genes related to certain GO terms from biomart database

### Usage

    get_genes_by_GO(returns = "ensembl_gene_id",
      dataset = "mmusculus_gene_ensembl", go = NULL)

### Arguments

`returns` | the gene id which is set as return. Default to be ensembl id A possible list of attributes can be retrieved using the function `listAttributes` from `biomaRt` package. The commonly used id types are 'external_gene_name', 'ensembl_gene_id' or 'entrezgene'.
`dataset` | Dataset you want to use. List of possible datasets can be retrieved using the function `listDatasets` from `biomaRt` package.
`go` | a vector of GO terms

### Details

Get genes related to certain GO terms from biomart database

### Value

a vector of gene ids.

### Examples

    # get all genes under GO term GO:0005739 in mouse, return ensembl gene id
    get_genes_by_GO(returns="ensembl_gene_id",
        dataset="mmusculus_gene_ensembl",
        go=c('GO:0005739'))

[Package scPipe version 1.4.1 Index]