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Bioinformatics Vol. 19 no. 12 2003
Pages 1585-1586
© 2003 Oxford University Press

Applications Note

ClustalW-MPI: ClustalW analysis using distributed and parallel computing

Kuo-Bin Li

Bioinformatics Institute, 30 Medical Drive, Singapore 117609, Republic of Singapore

Received on December 15, 2002 ; accepted on March 2, 2003

Summary: ClustalW is a tool for aligning multiple protein or nucleotide sequences. The alignment is achieved via three steps: pairwise alignment, guide-tree generation and progressive alignment. ClustalW-MPI is a distributed and parallel implementation of ClustalW. All three steps have been parallelized to reduce the execution time. The software uses a message-passing library called MPI (Message Passing Interface) and runs on distributed workstation clusters as well as on traditional parallel computers.

Availability:The source codes are written in ISO C and are available at http://www.bii.a-star.edu.sg/software/clustalw-mpi/. An open source implementations of MPI http://www-unix.mcs.anl.gov/mpi/.

Contact: kuobin{at}bii.a-star.edu.sg


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