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Bioinformatics Advance Access originally published online on April 29, 2008
Bioinformatics 2008 24(12):1467-1468; doi:10.1093/bioinformatics/btn213
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© The Author 2008. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

jSquid: a Java applet for graphical on-line network exploration

Martin Klammer 1,2,{dagger}, Sanjit Roopra 1,2,{dagger} and Erik L. L. Sonnhammer 1,*

1Stockholm Bioinformatics Centre, Stockholm University, 10691 Stockholm, Sweden and 2Department of Bioinformatics, Upper Austrian University of Applied Sciences, 4232 Hagenberg, Austria

*To whom correspondence should be addressed.


  Abstract

Summary: jSquid is a graph visualization tool for exploring graphs from protein–protein interaction or functional coupling networks. The tool was designed for the FunCoup web site, but can be used for any similar network exploring purpose. The program offers various visualization and graph manipulation techniques to increase the utility for the user.

Availability: jSquid is available for direct usage and download at http://jSquid.sbc.su.se including source code under the GPLv3 license, and input examples. It requires Java version 5 or higher to run properly.

Contact: erik.sonnhammer{at}sbc.su.se

Supplementary information: Supplementary data are available at Bioinformatics online.

Associate Editor: Thomas Lengauer

{dagger}The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First Authors.

Received on February 12, 2008; revised on April 28, 2008; accepted on April 28, 2008

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[Abstract] [Full Text] [PDF]


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