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Bioinformatics Advance Access originally published online on February 8, 2008
Bioinformatics 2008 24(6):868-869; doi:10.1093/bioinformatics/btn038
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© The Author 2008. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

Interactive visualization software for exploring phylogenetic trees and clades

Mark Derthick *

Human-Computer Interaction Institute, Carnegie Mellon University, Pittsburgh, PA, 15213, USA

*To whom correspondence should be addressed.


  Abstract

Summary: The Summary Tree Explorer (STE) is a Java application for interactively exploring sets of phylogenetic trees using two coupled representations: a node-and-link diagram and a textual list of common clades. Selection, pruning, filtering or re-rooting in one representation is immediately reflected in the other. While summary trees are more effective at showing the relationship among clades, they can only show a consistent subset of those that appear in the textual list. Working with both representations mitigates the disadvantages of having to choose just one.

Availability: STE, along with several sample datasets, is available at http://cityscape.inf.cs.cmu.edu/phylogeny/

Contact: mad{at}cs.cmu.edu

Associate Editor: Martin Bishop

Received on November 8, 2007; revised on January 23, 2008; accepted on January 24, 2008

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