GO4Organism: All gene association GO-terms for an organism

Description Usage Arguments Value Examples

View source: R/GO4org.R

Description

The function contains all the GO-terms associated with the genes of an organism and their levels. If "BP", "MF" or "CC" the GO-terms from the whole ontology is return and their levels. The supported organisms are "Homo sapiens / Human", "Rattus norvegicus / Rat", "Mus musculus / Mouse", "Danio rerio / Zebrafish", "Caenorhabditis elegans / Worm" ,"Arabidopsis thaliana / Cress", "Saccharomyces cerevisiae / Yeast", "Schizosaccharomyces pombe / Fission yeast", "Drosophila melanogaster / Fruit fly", "Escherichia coli / E.coli".

Usage

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GO4Organism(organism, domain = "BP")

Arguments

organism

The organism supported by the package. Both the scientific / common name of the organism can be use

domain

The ontology of the GO-terms. The default is BP.

Value

A two-column matrix that contains the GO-terms and their GO-levels

Examples

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# Return all the BP GO-terms associated with organism Homo sapiens
GO4Organism(organism = "Homo sapiens")

# Return all the CC GO-terms associated with organism Rat
GO4Organism(organism = "Rat", domain = "CC")

GOxploreR documentation built on Dec. 11, 2021, 9:48 a.m.