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    » MSA-CUDA: Multiple Sequence Alignment on Graphics Processing...
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    ASAP
    2009
    IEEE
    318views Hardware» more  ASAP 2009»
    MSA-CUDA: Multiple Sequence Alignment on Graphics Processing Units with CUDA
    13 years 8 months ago
    MSA-CUDA: Multiple Sequence Alignment on Graphics Processing Units with CUDA
    Download  agora.cs.illinois.edu
    Yongchao Liu, Bertil Schmidt, Douglas L. Maskell
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    IPPS
    2009
    IEEE
    168views Distributed And Parallel Com...» more  IPPS 2009»
    Parallel reconstruction of neighbor-joining trees for large multiple sequence alignments using CUDA
    13 years 11 months ago
    Parallel reconstruction of neighbor-joining trees for large multiple sequence alignments using CUDA
    Download  www.hicomb.org
    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
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    BMCBI
    2008
    211views more  BMCBI 2008»
    CUDA compatible GPU cards as efficient hardware accelerators for Smith-Waterman sequence alignment
    13 years 5 months ago
    CUDA compatible GPU cards as efficient hardware accelerators for Smith-Waterman sequence alignment
    Download  www.biomedcentral.com
    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
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    BMCBI
    2011
    273views Artificial Intelligence» more  BMCBI 2011»
    Protein alignment algorithms with an efficient backtracking routine on multiple GPUs
    12 years 8 months ago
    Protein alignment algorithms with an efficient backtracking routine on multiple GPUs
    Download  www.biomedcentral.com
    Background: Pairwise sequence alignment methods are widely used in biological research. The increasing number of sequences is perceived as one of the upcoming challenges for seque...
    Jacek Blazewicz, Wojciech Frohmberg, Michal Kierzy...
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    SASP
    2009
    IEEE
    291views Hardware» more  SASP 2009»
    A parameterisable and scalable Smith-Waterman algorithm implementation on CUDA-compatible GPUs
    13 years 11 months ago
    A parameterisable and scalable Smith-Waterman algorithm implementation on CUDA-compatible GPUs
    Download  www.see.ed.ac.uk
    —This paper describes a multi-threaded parallel design and implementation of the Smith-Waterman (SM) algorithm on compute unified device architecture (CUDA)-compatible graphic pr...
    Cheng Ling, Khaled Benkrid, Tsuyoshi Hamada
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