2.2g hmmconvert - convert between profile HMM file formats S. Eddy hmm hmmconvert hmmconvert perl "hmmconvert" 0 description description of hmmconvert hmmconvert 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. toto perl "" 1000 oldhmmfile Old HMM file perl " $oldhmmfile" 2 hmmer_HMM perl 1 result_file perl ($append_file) ? " $append_file" : " $oldhmmfile.convert" 3 $append_file $oldhmmfile.convert new_format new format perl " $value" 1 HMMER 2 ASCII (default) -b HMMER 2 binary (-b) -p GCG profile (-p) -P Compugen XSW extended profile (-P) append_file append the new HMM to an existing file (-A) perl ($value) ? " -A" : "" 1