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
contains precomputed data structures for the fast heuristic filter (the MSV
filter). The
<hmmfile>.h3p file contains precomputed data
structures 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
