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Life & Material Science
Presentation
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Modified Smith-Waterman-Gotoh Algorithm for CUDA Implementation
Speakers:
Richard Wilton
- The Johns Hopkins University
Abstract:
It is axiomatic that computational throughput can be increased by exploiting the parallelism of GPU hardware -- but what if the computational algorithm is not easy to implement in parallel? We have modified one such algorithm -- the Smith-Waterman-Gotoh dynamic programming algorithm for local sequence alignment -- so as to make it more amenable to data-parallel computation. The result is a successful CUDA implementation that fully exploits GPU parallelism.
 
Topics:
Life & Material Science, Developer - Algorithms
Type:
Talk
Event:
GTC Silicon Valley
Year:
2010
Session ID:
S102115
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