hmmpress(1) HMMER Manual hmmpress(1)
NAME
hmmpress - prepare an HMM database for hmmscan
SYNOPSIS
hmmpress [options] <hmmfile>
DESCRIPTION
Starting from a profile database <hmmfile> in standard HMMER3 format, construct binary compressed datafiles for hmmscan. The hmmpress step
is required for hmmscan to work.
Four files are created: <hmmfile>.h3m, <hmmfile>.h3i, <hmmfile>.h3f, and <hmmfile>.h3p. The <hmmfile>.h3m file contains the profile HMMs
and their annotation in a binary format. The <hmmfile>.h3i file is an SSI index for the <hmmfile>.h3m file. The <hmmfile>.h3f file con-
tains precomputed data structures for the fast heuristic filter (the MSV filter). The <hmmfile>.h3p file contains precomputed data struc-
tures for the rest of each profile.
OPTIONS
-h Help; print a brief reminder of command line usage and all available options.
-f Force; overwrites any previous hmmpress'ed datafiles. The default is to bitch about any existing files and ask you to delete them
first.
SEE ALSO
See hmmer(1) for a master man page with a list of all the individual man pages for programs in the HMMER package.
For complete documentation, see the user guide that came with your HMMER distribution (Userguide.pdf); or see the HMMER web page
(@HMMER_URL@).
COPYRIGHT
@HMMER_COPYRIGHT@
@HMMER_LICENSE@
For additional information on copyright and licensing, see the file called COPYRIGHT in your HMMER source distribution, or see the HMMER
web page (@HMMER_URL@).
AUTHOR
Eddy/Rivas Laboratory
Janelia Farm Research Campus
19700 Helix Drive
Ashburn VA 20147 USA
http://eddylab.org
HMMER
@HMMER_VERSION@ @HMMER_DATE@ hmmpress(1)
