GOexpress (version 1.6.1)

AlvMac_allGO: 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")

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.

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.

Examples

# Load the data
data(AlvMac_allGO)

# Structure of the data
str(AlvMac_allGO)

# First few rows
head(AlvMac_allGO)