NAME

       change_paired_read_orientation - Change the orientation of paired-end reads in a FASTA
       file

DESCRIPTION

       Reverse the orientation, i.e. reverse-complement each right-hand paired-end read (ID
       ending in /2) in a FASTA file.

REQUIRED ARGUMENTS

       <in_fasta>
           FASTA file containing the reads to re-orient.

       <out_fasta>
           Output FASTA file where to write the reads.

COPYRIGHT

       Copyright 2009-2012 Florent ANGLY <florent.angly@gmail.com>

       Grinder is free software: you can redistribute it and/or modify it under the terms of the
       GNU General Public License (GPL) as published by the Free Software Foundation, either
       version 3 of the License, or (at your option) any later version.  Grinder is distributed
       in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied
       warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU General
       Public License for more details.  You should have received a copy of the GNU General
       Public License along with Grinder.  If not, see <http://www.gnu.org/licenses/>.

BUGS

       All complex software has bugs lurking in it, and this program is no exception.  If you
       find a bug, please report it on the SourceForge Tracker for Grinder:
       <http://sourceforge.net/tracker/?group_id=244196&atid=1124737>

       Bug reports, suggestions and patches are welcome. Grinder's code is developed on
       Sourceforge (<http://sourceforge.net/scm/?type=git&group_id=244196>) and is under Git
       revision control. To get started with a patch, do:

          git clone git://biogrinder.git.sourceforge.net/gitroot/biogrinder/biogrinder