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ontoCAT: an R package for ontology traversal and search
Natalja Kurbatova1, Tomasz Adamusiak, Pavel Kurnosov
1EMBL Outstation-Hinxton, European Bioinformatics Institute, Cambridge, UK. natalja@ebi.ac.uk
Motivation:
There exist few simple and easily accessible methods to integrate ontologies programmatically in the R environment. We present ontoCAT-an R package to access ontologies in widely used standard formats, stored locally in the filesystem or available online. The ontoCAT package supports a number of traversal and search functions on a single ontology, as well as searching for ontology terms across multiple ontologies and in major ontology repositories.
Availability:
The package and sources are freely available in Bioconductor starting from version 2.8: http://bioconductor.org/help/bioc-views/release/bioc/html/ontoCAT.html or via the OntoCAT website http://www.ontocat.org/wiki/r.
Contact:
natalja@ebi.ac.uk; natalja@ebi.ac.uk.
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