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Bioinformatics Advance Access published online on April 19, 2005
Bioinformatics, doi:10.1093/bioinformatics/bti450
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© The Author (2005). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oupjournals.org
Received February 4, 2005
Revised April 6, 2005
Accepted April 12, 2005

Applications note

HCPM - program for hierarchical clustering of protein models

Dominik Gront 1* and Andrzej Kolinski 1

1 Faculty of Chemistry, Warsaw University, Pasteura 1, 02-093 Warsaw, Poland

* To whom correspondence should be addressed.
Dominik Gront, E-mail: dgront{at}chem.uw.edu.pl


  Abstract

Summary: HCPM is a tool for clustering protein structures from comparative modeling, ab-initio structure prediction, etc. A hierarchical clustering algorithm is designed, tested and a heuristic is provided for an optimal cluster selection. The method has been successfully tested during the CASP6 experiment.

Availability: HCPM program can be downloaded from http://www.biocomp.chem.uw.edu.pl/HCPM/.


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