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Bioinformatics Advance Access originally published online on August 14, 2008
Bioinformatics 2008 24(19):2256-2257; doi:10.1093/bioinformatics/btn408
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© The Author 2008. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

GIMSAN: a Gibbs motif finder with significance analysis

Patrick Ng and Uri Keich *

Department of Computer Science, Cornell University, Ithaca, NY 14853, USA

*To whom correspondence should be addressed.


  Abstract

Summary: We present GIMSAN (GIbbsMarkov with Significance ANalysis): a novel tool for de novo motif finding. GIMSAN combines GibbsMarkov, our variant of the Gibbs Sampler, described here for the first time, with our recently introduced significance analysis.

Availability: GIMSAN is currently available as a web application and a stand-alone application on Unix and PBS (Portable Batch System) cluster through links from http://www.cs.cornell.edu/~keich.

Contact: keich{at}cs.cornell.edu

Associate Editor: Limsoon Wong

Received on June 16, 2008; revised on July 25, 2008; accepted on July 29, 2008

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