SYNOPSIShmm2fetch [options] database name
hmm2fetch is a small utility that retrieves an HMM called name from a HMMER model database called database. in a new format, and prints that model to standard output. For example, hmm2fetch Pfam rrm retrieves the RRM (RNA recognition motif) model from Pfam, if the environment variable HMMERDB is set to the location of the Pfam database. The retrieved HMM file is written in HMMER 2 ASCII format.
The database must have an associated GSI index file. To index an HMM database, use the program hmm2index.
Print brief help; includes version number and summary of
all options, including expert options.
as an HMM number instead of a name. Numbering starts at 0.
For example, to fetch the first HMM from an HMM database
you would do
hmm2fetch -n 0 foo.
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/