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Bioinformatics Advance Access originally published online on January 18, 2007
Bioinformatics 2007 23(6):769-770; doi:10.1093/bioinformatics/btl655
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© The Author 2007. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

Biskit—A software platform for structural bioinformatics

Raik Grünberg 1,*, Michael Nilges 2 and Johan Leckner 3*

1CRG, Systems Biology program, Dr Aiguader 88, E-08003 Barcelona, Spain, 2Unité de Bio–informatique structurale, CNRS URA 2185, Institut Pasteur, F-75724 Paris CEDEX 15, France and 3Swedish NMR Centre at Göteborg University, P.O. Box 465, SE-405 30 Göteborg, Sweden

*To whom correspondence should be addressed.


  Abstract

Summary: Biskit is a modular, object-oriented python library that provides intuitive classes for many typical tasks of structural bioinformatics research. It facilitates the manipulation and analysis of macromolecular structures, protein complexes and molecular dynamics trajectories. At the same time, Biskit offers a software platform for the rapid integration of external programs and new algorithms into complex structural bioinformatics workflows. Calculations are thus often delegated to established programs like Xplor, Amber, Hex, Prosa, Hmmer and Modeller; interfaces to further software can be easily added. Moreover, Biskit simplifies the parallelization of time consuming calculations via PVM (Parallel Virtual Machine).

Availability: The latest snapshot of Biskit, documentation and examples are freely available under the GNU General Public License at http://biskit.sf.net (alternate url http://biskit.pasteur.fr).

Contact: johan.leckner{at}nmr.se, raik.gruenberg{at}crg.es

Associate Editor: Anna Tramontano

Received on October 20, 2006; revised on December 21, 2006; accepted on December 21, 2006

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