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URL: http://cudasw.sourceforge.net/
Proper Citation: CUDASW++ (RRID:SCR_008862)
Description: CUDASW++ is a bioinformatics software for Smith-Waterman protein database searches that takes advantage of the massively parallel CUDA architecture of NVIDIA Tesla GPUs to perform sequence searches 10x-50x faster than NCBI BLAST. In this algorithm, we deeply explore the SIMT (Single Instruction, Multiple Thread) and virtualized SIMD (Single Instruction, Multiple Data) abstractions to achieve fast speed. This algorithm has been fully tested on Tesla C1060, Tesla C2050, GeForce GTX 280 and GTX 295 graphics cards, and has been incorporated to NVIDIA Tesla Bio Workbench. * Operating System: Linux * Programming language: CUDA and C * Other requirements: CUDA SDK and Toolkits 2.0 or higher
Abbreviations: CUDASW++
Synonyms: CUDASW++ (Smith Waterman)
Resource Type: source code, software resource
Defining Citation: PMID:19416548, PMID:20370891
Keywords: smith-waterman, bioinformatics, protein, protein database, sequence, simt, simd, bio.tools
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