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ontoCAT: an R package for ontology traversal and search

Dissemination number: 
418
ontology paper published in Bioinformatics
About this activity
Date: 
Jun 2011
Status: 
Published
Audience: 
Scientific
Institutions involved
Institutions involved: 
EMBL
If other, please specify: 
Swertz
Abstract, links and uploads
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
Citation: 
Kurbatova N, Adamusiak T, Kurnosov P, Swertz MA, and Kapushesky M. ontoCAT: an R package for ontology traversal and search Bioinformatics 2011 Jun: btr375v1-btr375.
DOI: 
10.1093/bioinformatics/btr375
Other
Contact name: 
Tomasz Adamusiak
G2P Knowledge Centre is part of GEN2PHEN and funded by the Health Thematic Area of the Cooperation Programme of the European Commission within the VII Framework Programme for Research and Technological Development.

© GEN2PHEN 2011