SYNOPSIShmm2convert [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).
Convert to HMMER 2 ASCII file. This is the default, so this option
Convert to HMMER 2 binary file.
Print brief help; includes version number and summary of
all options, including expert options.
Convert to GCG profile .prf format.
Append mode; append to
rather than creating a new file.
already exists, and
is not being used to append to the file,
hmm2convert will refuse to clobber the existing
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.)
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/