Highly efficient mapping of the Smith-Waterman algorithm on CUDA-compatible GPUs

Dohi, K.; Benkrid, K.; Ling, Cheng; Hamada, T.; Shibata, Y.

doi:10.1109/ASAP.2010.5540796

by K. Dohi, K. Benkrid, Cheng Ling, T. Hamada, Y. Shibata

Reference:

Highly efficient mapping of the Smith-Waterman algorithm on CUDA-compatible GPUs (K. Dohi, K. Benkrid, Cheng Ling, T. Hamada, Y. Shibata), In Application-specific Systems Architectures and Processors (ASAP), 2010 21st IEEE International Conference on, 2010.

Bibtex Entry:

@INPROCEEDINGS{dohi:2010:asap, 
author={Dohi, K. and Benkrid, K. and Cheng Ling and Hamada, T. and Shibata, Y.}, 
booktitle={Application-specific Systems Architectures and Processors (ASAP), 2010 21st IEEE International Conference on}, 
title={Highly efficient mapping of the Smith-Waterman algorithm on CUDA-compatible GPUs}, 
year={2010}, 
pages={29-36}, 
keywords={computer graphics;divide and conquer methods;query processing;software architecture;CUDA-compatible GPU;GPU;NVIDIA corporation;Smith-Waterman algorithm;bioinformaticians;compute unified device architecture;divide and conquer approach;giga cell update per second;graphic processing units;multithreaded parallel design;pairwise sequence alignment matrix;Algorithm design and analysis;Bioinformatics;Computer architecture;Concurrent computing;Costs;Graphics;Graphics processing unit;Hardware;Registers;Throughput;Yarn;CVOA;GPU;Smith-Waterman algorithm}, 
doi={10.1109/ASAP.2010.5540796}, 
ISSN={2160-0511},}