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hmmpress

By Finn R., Eddy S., Last update 1494698999
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hmmpress description

Hmmpress prepares an HMM database for hmmscan. Starting from a profile database in standard HMMER3 format, construct binary compressed datafiles for hmmscan. The hmmpress step is required for hmmscan to work. Four files are created: .h3m, .h3i, .h3f, and .h3p. The .h3m file contains the profile HMMs and their annotation in a binary format. The .h3i file is an SSI index for the .h3m file. The .h3f file contains precomputed data structures for the fast heuristic filter (the MSV filter). The .h3p file contains precomputed data structures for the rest of each profile.


Parent program: hmmer

HMMER software allows search for protein homologs and also permits multiple protein sequence alignment. Unlike BLAST, HMMER uses probabilistic models called profile hidden Markov models which provide a significantly more accurate and more sensitive detection of remote homologs. The HMMER software suite has been widely used, particularly for protein family databases such as Pfam and InterPro and their associated search tools. Also HMMER has several programs for protein sequence analysis such as phmmer, hmmscan, hmmsearch and jackhmmer.