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A Practical Guide to Phylogenetics for Nonexperts
Published on: February 5, 2014
Using reconfigurable hardware to accelerate multiple sequence alignment with ClustalW
Tim Oliver1, Bertil Schmidt, Darran Nathan
1School of Computer Engineering, Nanyang Technological University, Singapore. tim.oliver@pmail.ntu.edu.sg
Bioinformatics (Oxford, England)
|May 28, 2005
Abstract:
Aligning hundreds of sequences using progressive alignment tools such as ClustalW requires several hours on state-of-the-art workstations. We present a new approach to compute multiple sequence alignments in far shorter time using reconfigurable hardware. This results in an implementation of ClustalW with significant runtime savings on a standard off-the-shelf FPGA.
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