| Document Date: 2014-09-02 13:41:21
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City Ashburn / / Company Creative Commons / Intel / / / Event Man-Made Disaster / / Facility University of Virginia / pipeline The MSV / Howard Hughes Medical Institute / HHMI Janelia Farm Research Campus / / IndustryTerm satisfactory solution / sized search / database search programs / software implementations / database search / native dynamic programming algorithms / sequence database homology search / Search speeds / software package / score algorithm / commodity processors / search programs / homology search methodology / local alignment scoring algorithm / heuristic algorithm / software implementation / unfiltered search / important applications / local alignment algorithms / memory-efficient algorithms / probabilistic inference technology / intensive scoring algorithms / / Organization University of Virginia / Howard Hughes Medical Institute / / Person William R. Pearson / Competing Interests / Az / Eddy SR / Sean R. Eddy / / Position original author / Editor / desirable Forward / full HMM Forward / author / full Forward / representative / Forward / / ProgrammingLanguage C / L / J / / ProvinceOrState Virginia / / PublishedMedium PLoS Computational Biology / / Technology native dynamic programming algorithms / local alignment scoring algorithm / SIMD vector parallelization The MSV algorithm / Backward algorithms / speech recognition / Operation MSV score algorithm / Viterbi algorithm / local alignment algorithms / profile HMM technology / MSV algorithm / commodity processors / heuristic profile HMM algorithms / computationally intensive scoring algorithms / Forward algorithm / Forward/Backward algorithms / probabilistic inference technology / profile HMM Forward/Backward algorithms / HMM algorithm / desirable Forward algorithm / http / simulation / MSV score algorithm / HMM Forward/Backward algorithm / / URL www.ploscompbiol.org / / |
Accelerated Profile HMM Searches Sean R. Eddy * HHMI Janelia Farm Research Campus, Ashburn, Virginia, United States of America Abstract Profile hidden Markov models (profile HMMs) and probabilistic inference methods have