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Bioinformatics Vol. 18 no. 5 2002
Pages 765-766
© 2002 Oxford University Press

Applications Note

BeoBLAST: distributed BLAST and PSI-BLAST on a Beowulf cluster

J. D. Grant 1, R. L. Dunbrack 2, F. J. Manion 3 and M. F. Ochs 3,*

1 Bioinformatics Facility, Fox Chase Cancer Center, Philadelphia, PA 19111, USA
2 Biomolecular Structure and Function Working Group, Fox Chase Cancer Center, Philadelphia, PA 19111, USA
3 Bioinformatics Working Group, Fox Chase Cancer Center, Philadelphia, PA 19111, USA

Received on September 26, 2001 ; revised on November 7, 2001 ; accepted on December 19, 2001

Summary: BeoBLAST is an integrated software package that handles user requests and distributes BLAST and PSI-BLAST searches to nodes of a Beowulf cluster, thus providing a simple way to implement a scalable BLAST system on top of relatively inexpensive computer clusters. Additionally, BeoBLAST offers a number of novel search features through it's web interface, including the ability to perform simultaneous searches of multiple databases with multiple queries, and the ability to start a search using the PSSM generated from a previous PSI-BLAST search on a different database. The underlying system can also handle automated querying for high throughput work.

Availability: Source code is available under the GNU public license at http://bioinformatics.fccc.edu/

Contact: jd_grant{at}fccc.edu rl_dunbrack{at}fccc.edu fj_manion{at}fccc.edu m_ochs{at}fccc.edu

* To whom correspondence should be addressed.


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