Format

Send to

Choose Destination
Bioinformatics. 2011 Sep 1;27(17):2468-70. doi: 10.1093/bioinformatics/btr375. Epub 2011 Jun 22.

ontoCAT: an R package for ontology traversal and search.

Author information

1
EMBL Outstation-Hinxton, European Bioinformatics Institute, Cambridge, UK. natalja@ebi.ac.uk

Abstract

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.

PMID:
21697126
DOI:
10.1093/bioinformatics/btr375
[Indexed for MEDLINE]

Supplemental Content

Full text links

Icon for Silverchair Information Systems
Loading ...
Support Center