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Bioinformatics Advance Access published online on November 2, 2005
Bioinformatics, doi:10.1093/bioinformatics/bti747
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Published by Oxford University Press 2005
Received August 30, 2005
Revised October 17, 2005
Accepted October 25, 2005

Applications note

Nexplorer: phylogeny-based exploration of sequence family data

Vivek Gopalan 1, Wei-Gang Qiu 2, Michael Z. Chen 1, and Arlin Stoltzfus 3*

1 Center for Advanced Research in Biotechnology, 9600 Gudelsky Drive, Rockville, MD 20850, USA
2 Department of Biological Sciences, Hunter College, CUNY, 695 Park Ave., New York, NY 10021 USA
3 Center for Advanced Research in Biotechnology, 9600 Gudelsky Drive, Rockville, MD 20850, USA; National Institute of Standards and Technology, Biochemical Science Division, Gaithersburg, MD, 20899-8310 USA

* To whom correspondence should be addressed.
Arlin Stoltzfus, E-mail: arlin.stoltzfus{at}nist.gov


  Abstract

Summary: Nexplorer is a web-based program for interactive browsing and manipulation of character data in NEXUS format, well suited for use with alignments and trees representing families of homologous genes or proteins. Users may upload a sequence family data set, or choose from one of several thousand already available. Nexplorer provides a flexible means to develop customized views that combine a tree and a data matrix or alignment, to create subsets of data, and to output data files or publication-quality graphics.

Availability: Web access is from http://www.molevol.org/nexplorer.


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