AlvMac_allGO {GOexpress} | R Documentation

## Example of custom gene ontology annotations.

### Description

An example `data.frame` providing the identifier, name and namespace corresponding to gene ontology identifiers, compatible with the `AlvMac` example `ExpressionSet`.

### Usage

    data("AlvMac_allGO")

### Details

This data-frame includes all gene ontologies present in the `btaurus_gene_ensembl` dataset of the Ensembl BioMart server, including those associated with no gene identifier in the `AlvMac` example `ExpressionSet`.

See the help page of the `GO_analyse` function for an example usage.

### Value

A data frame detailing information about 13,302 gene ontologies:

- `go_id` are gene ontology identifiers.

- `name_1006` contains the corresponding gene ontology name.

- `namespace_1003` contains the corresponding gene ontology namespace (i.e. "biological_process", "molecular_function", or "cellular_component")

### Source

These annotations were obtained from the Ensembl BioMart server using the `biomaRt` package to access the Ensembl release 75 http://feb2014.archive.ensembl.org.

### Examples

    # Load the data
    data(AlvMac_allGO)

    # Structure of the data
    str(AlvMac_allGO)

    # First few rows
    head(AlvMac_allGO)

[Package GOexpress version 1.20.0 Index]