Provided by: hmmer2_2.3.2+dfsg-6_amd64
hmm2convert - convert between profile HMM file formats
hmm2convert [options] oldhmmfile newhmmfile
hmm2convert reads an HMM file from oldhmmfile in any HMMER format, and writes it to a new file newhmmfile in a new format. oldhmmfile and newhmmfile must be different files; you can't reliably overwrite the old file. By default, the new HMM file is written in HMMER 2 ASCII format. Available formats are HMMER 2 ASCII (default), HMMER 2 binary (-b) GCG profile (-p) , and Compugen XSW extended profile (-P).
-a Convert to HMMER 2 ASCII file. This is the default, so this option is unnecessary. -b Convert to HMMER 2 binary file. -h Print brief help; includes version number and summary of all options, including expert options. -p Convert to GCG profile .prf format. -A Append mode; append to newhmmfile rather than creating a new file. -F Force; if newhmmfile already exists, and -A is not being used to append to the file, hmm2convert will refuse to clobber the existing file unless -F is used. -P Convert the HMM to Compugen XSW extended profile format, which is similar to GCG profile format but has two extra columns for delete-open and delete-extend costs. (I do not believe that Compugen publicly supports this format; it may be undocumented.)
Master man page, with full list of and guide to the individual man pages: see hmmer2(1). For complete documentation, see the user guide (ftp://selab.janelia.org/pub/software/hmmer/2.3.2/Userguide.pdf); or see the HMMER web page, http://hmmer.janelia.org/.
Copyright (C) 1992-2003 HHMI/Washington University School of Medicine. Freely distributed under the GNU General Public License (GPL). See the file COPYING in your distribution for details on redistribution conditions.
Sean Eddy HHMI/Dept. of Genetics Washington Univ. School of Medicine 4566 Scott Ave. St Louis, MO 63110 USA http://www.genetics.wustl.edu/eddy/