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Bioinformatics Advance Access originally published online on August 27, 2004
Bioinformatics 2005 21(2):275-276; doi:10.1093/bioinformatics/bth495
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Bioinformatics vol. 21 issue 2 © Oxford University Press 2005; all rights reserved.

OntologyTraverser: an R package for GO analysis

A. Young , N. Whitehouse , J. Cho and C. Shaw *

Baylor College of Medicine, Department of Molecular and Human Genetics Houston, TX, USA

*To whom correspondence should be addressed.

Summary: Gene Ontology (GO) annotations have become a major tool for analysis of genome-scale experiments. We have created OntologyTraverser—an R package for GO analysis of gene lists. Our system is a major advance over previous work because (1) the system can be installed as an R package, (2) the system uses Java to instantiate the GO structure and the SJava system to integrate R and Java and (3) the system is also deployed as a publicly available web tool.

Availability: Our software is academically available through http://franklin.imgen.bcm.tmc.edu/OntologyTraverser/. Both the R package and the web tool are accessible.

Contact: cashaw{at}bcm.tmc.edu


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