1hmmconvert(1)                    HMMER Manual                    hmmconvert(1)
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NAME

6       hmmconvert - convert profile file to a HMMER format
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SYNOPSIS

11       hmmconvert [options] <hmmfile>
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DESCRIPTION

16       The  hmmconvert  utility  converts  an  input profile file to different
17       HMMER formats.
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20       By default, the input profile can be in  any  HMMER  format,  including
21       old/obsolete  formats  from HMMER2, ASCII or binary; the output profile
22       is a current HMMER3 ASCII format.
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25       <hmmfile> may be '-' (dash), which means reading this input from  stdin
26       rather than a file.
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OPTIONS

31       -h     Help;  print  a  brief  reminder  of  command line usage and all
32              available options.
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35       -a     Output profiles in ASCII text format. This is the default.
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38       -b     Output profiles in binary format.
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41       -2     Output in legacy HMMER2 ASCII text format, in ls (glocal)  mode.
42              This  allows  HMMER3  models  to  be  converted  back to a close
43              approximation of HMMER2, for comparative studies.
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46       --outfmt <s>
47              Output in a HMMER3 ASCII text format other then the most current
48              one.   Valid  choices  for <s> are 3/a through 3/f.  The current
49              format is 3/f, and this is the default. The format 3/b was  used
50              in  the official HMMER3 release, and the others were used in the
51              various testing versions.
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SEE ALSO

56       See hmmer(1) for a master man page with a list of  all  the  individual
57       man pages for programs in the HMMER package.
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60       For  complete  documentation,  see  the  user guide that came with your
61       HMMER distribution (Userguide.pdf); or see the HMMER web page ().
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67       Copyright (C) 2015 Howard Hughes Medical Institute.
68       pFreely distributed under the GNU General Public License (GPLv3).
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70       For additional information on copyright and  licensing,  see  the  file
71       called  COPYRIGHT  in  your HMMER source distribution, or see the HMMER
72       web page ().
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AUTHOR

77       Eddy/Rivas Laboratory
78       Janelia Farm Research Campus
79       19700 Helix Drive
80       Ashburn VA 20147 USA
81       http://eddylab.org
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85       "
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90HMMER 3.1b2                      February 2015                   hmmconvert(1)
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