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.\"
.IX Title "BP_MULTI_HMMSEARCH 1p"
.TH BP_MULTI_HMMSEARCH 1p "2023-01-22" "perl v5.36.0" "User Contributed Perl Documentation"
.\" For nroff, turn off justification.  Always turn off hyphenation; it makes
.\" way too many mistakes in technical documents.
.if n .ad l
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.SH "NAME"
multi_hmmsearch \- perform a hmmsearch into multiple FASTA files using
                  an INDEX file
.SH "SYNOPSIS"
.IX Header "SYNOPSIS"
multi_hmmsearch \-p hmm_file [\-i] \-f index_file
.SH "DESCRIPTION"
.IX Header "DESCRIPTION"
Not technically a Bio::Tools::Run script as this doesn't use any
Bioperl or Bioperl-run components but it's useful.
.SS "Mandatory Options:"
.IX Subsection "Mandatory Options:"
.Vb 3
\&  \-p  HMM profile to use for the search.
\&  \-f  INDEX file that contains a list of FASTA files for the multiple
\&      search.
.Ve
.SS "Special Options:"
.IX Subsection "Special Options:"
.Vb 4
\&  \-i  Create a new index file with the resulting hmms files. This is
\&      useful if you want to pass this list as input arguments into
\&      another programs.
\&  \-h  Show this documentation.
.Ve
.SH "FEEDBACK"
.IX Header "FEEDBACK"
.SS "Mailing Lists"
.IX Subsection "Mailing Lists"
User feedback is an integral part of the evolution of this and other
Bioperl modules. Send your comments and suggestions preferably to the
Bioperl mailing list. Your participation is much appreciated.
.PP
.Vb 2
\&  bioperl\-l@bioperl.org                  \- General discussion
\&  http://bioperl.org/wiki/Mailing_lists  \- About the mailing lists
.Ve
.SS "Reporting Bugs"
.IX Subsection "Reporting Bugs"
Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
.PP
.Vb 1
\&  http://redmine.open\-bio.org/projects/bioperl/
.Ve
.SH "AUTHOR"
.IX Header "AUTHOR"
.Vb 1
\&  Mauricio Herrera Cuadra <mauricio\-at\-open\-bio.org>
.Ve