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Bioinformatics Advance Access published online on July 16, 2008
Bioinformatics, doi:10.1093/bioinformatics/btn364
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© The Author (2008). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

EPoS: a modular software framework for phylogenetic analysis

Thasso Griebel , Malte Brinkmeyer and Sebastian Böcker

Chair for Bioinformatics, Faculty for Mathematics and Computer Science, Friedrich-Schiller-University Jena, 07743 Jena, Germany

*To whom correspondence should be addressed. Thasso Griebel, E-mail: thasso{at}minet.uni-jena.de


  Abstract

Summary: EPoS is a modular software framework for phylogenetic analysis, visualization, and data management. It provides a pluginbased system that integrates a storage facility, a rich user interface, and the ability to easily incorporate new methods, functions, and visualizations. EPoS ships with persistent data management, a set of well-known phylogenetic algorithms and a multitude of tree visualization methods and layouts. Implemented algorithms cover distance based tree construction, consensus trees, and various graphbased supertree methods. The rendering system can be customized for, say, different edge and node styles.

Availability: Executables and source code are available under the LGPL license at http://www.bio.informatik.uni-jena.de/epos.

Supplementary information: The homepage contains tutorials and documentation for both users and programmers who want to develop plugins and extensions.

Associate Editor: Prof. Martin Bishop

Received on April 11, 2008; revised on June 20, 2008; accepted on July 14, 2008

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