Hidden Markov model speed heuristic and iterative HMM search procedure

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. Results We have designed a series of database filtering steps, HMMERHEA...

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Bibliographic Details
Published in:	BMC bioinformatics Vol. 11; no. 1; p. 431
Main Authors:	Johnson, L Steven, Eddy, Sean R, Portugaly, Elon
Format:	Journal Article
Language:	English
Published:	London BioMed Central 18.08.2010 BioMed Central Ltd Springer Nature B.V BMC
Subjects:	Algorithms Artificial Intelligence Base Sequence Bioinformatics Biomedical and Life Sciences Comparative genomics Computational biology Computational Biology/Bioinformatics Computer Appl. in Life Sciences Computer science Databases, Protein Genetic algorithms Hidden Markov models Iterative methods Life Sciences Markov Chains Methods Microarrays Proteins Proteins - chemistry Research Article Sequence Alignment - methods Software Studies United States Test Database Search Time Profile Hide Markov Model Entropy Weighting Iterative Search
ISSN:	1471-2105, 1471-2105
Online Access:	Get full text
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