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BMCBI
2008
211views more  BMCBI 2008»
13 years 5 months ago
CUDA compatible GPU cards as efficient hardware accelerators for Smith-Waterman sequence alignment
Background: Searching for similarities in protein and DNA databases has become a routine procedure in Molecular Biology. The Smith-Waterman algorithm has been available for more t...
Svetlin Manavski, Giorgio Valle
PC
2010
177views Management» more  PC 2010»
13 years 4 months ago
Parallel graph component labelling with GPUs and CUDA
Graph component labelling, which is a subset of the general graph colouring problem, is a computationally expensive operation that is of importance in many applications and simula...
Kenneth A. Hawick, Arno Leist, Daniel P. Playne
IPPS
2009
IEEE
14 years 12 days ago
Parallel reconstruction of neighbor-joining trees for large multiple sequence alignments using CUDA
Computing large multiple protein sequence alignments using progressive alignment tools such as ClustalW requires several hours on state-of-the-art workstations. ClustalW uses a th...
Yongchao Liu, Bertil Schmidt, Douglas L. Maskell
LCPC
2009
Springer
13 years 10 months ago
MIMD Interpretation on a GPU
Programming heterogeneous parallel computer systems is notoriously difficult, but MIMD models have proven to be portable across multi-core processors, clusters, and massively paral...
Henry G. Dietz, B. Dalton Young
PPOPP
2012
ACM
12 years 1 months ago
Chestnut: a GPU programming language for non-experts
Graphics processing units (GPUs) are powerful devices capable of rapid parallel computation. GPU programming, however, can be quite difficult, limiting its use to experienced prog...
Andrew Stromme, Ryan Carlson, Tia Newhall