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

Proceedings of the International Conference on Application-Specific Systems, Architectures and Processors

Volumn , Issue , 2010, Pages 29-36

  Dohi, Keisuke ^a   Benkrid, Khaled ^b   Ling, Cheng ^b   Hamada, Tsuyoshi ^a   Shibata, Yuichiro ^a  

^a NAGASAKI UNIVERSITY   (Japan)

^b UNIVERSITY OF EDINBURGH   (United Kingdom)

Author keywords

CUDA; GPU; Smith Waterman algorithm

Indexed keywords

BIOINFORMATICIANS; COMPUTE UNIFIED DEVICE ARCHITECTURES; CONDITIONAL BRANCH; CUDA; DIVIDE-AND-CONQUER APPROACH; GPU; GPU IMPLEMENTATION; GRAPHIC PROCESSING UNITS; HARDWARE RESOURCES; INNER LOOPS; INTERMEDIATE DATUM; LOOP UNROLLING; MATRIX; MULTITHREADED; PAIRWISE SEQUENCE ALIGNMENT; PARALLEL DESIGN; PUBLIC DOMAINS; SHARED MEMORIES; SMITH-WATERMAN; SMITH-WATERMAN ALGORITHM; SOURCE CODES; SUB-MATRICES; THREAD SYNCHRONIZATION;

BIOINFORMATICS; COMPUTER ARCHITECTURE; PROGRAM PROCESSORS; WEAVING;

ALGORITHMS;

EID: 77955905580     PISSN: 10636862     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/ASAP.2010.5540796     Document Type: Conference Paper

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