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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 anddoi:10.1093/bioinformatics/btr375 pmid:21697126 fatcat:r4bd4tzeffautad7eiofo4wplq