Hidden Markov model speed heuristic and iterative HMM search procedure |
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| Authors: | L Steven Johnson Sean R Eddy Elon Portugaly |
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| Institution: | (1) Department of Immunology and Pathology, Washington University School of Medicine, St. Louis, Missouri, USA;(2) Janelia Farm Research Campus, Howard Hughes Medical Institute, Ashburn, Virginia, USA;(3) School of Computer Science & Engineering, The Hebrew University of Jerusalem, Jerusalem, Israel |
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| Abstract: | Background Profile hidden Markov models (profile-HMMs) are sensitive tools for remote protein homology detection, but the main scoring
algorithms, Viterbi or Forward, require considerable time to search large sequence databases. |
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