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Bio::AlignIO::selex(3)User Contributed Perl DocumentatioBio::AlignIO::selex(3)

NAME
       Bio::AlignIO::selex - selex sequence input/output stream

SYNOPSIS
	 # Do not use this module directly.  Use it via	the L<Bio::AlignIO> class.

	 use Bio::AlignIO;
	 use strict;

	 my $in	= Bio::AlignIO->new(-format => 'selex',
				    -file   => 't/data/testaln.selex');
	 while(	my $aln	= $in->next_aln	) {

	 }

DESCRIPTION
       This object can transform Bio::Align::AlignI objects to and from	selex
       flat file databases.

FEEDBACK
   Support
       Please direct usage questions or	support	issues to the mailing list:

       bioperl-l@bioperl.org

       rather than to the module maintainer directly. Many experienced and
       reponsive experts will be able look at the problem and quickly address
       it. Please include a thorough description of the	problem	with code and
       data examples if	at all possible.

   Reporting Bugs
       Report bugs to the Bioperl bug tracking system to help us keep track
       the bugs	and their resolution. Bug reports can be submitted via the
       web:

	 https://github.com/bioperl/bioperl-live/issues

AUTHORS	- Peter	Schattner
       Email: schattner@alum.mit.edu

CONTRIBUTORS
       Jason Stajich, jason-at-bioperl.org

APPENDIX
       The rest	of the documentation details each of the object	methods.
       Internal	methods	are usually preceded with a _

   next_aln
	Title	: next_aln
	Usage	: $aln = $stream->next_aln()
	Function: returns the next alignment in	the stream. Tries to read *all*	selex
		 It reads all non whitespace characters	in the alignment
		 area. For selexs with weird gaps (eg ~~~) map them by using
		 $al->map_chars('~','-')
	Returns	: L<Bio::Align::AlignI>	object
	Args	: NONE

   write_aln
	Title	: write_aln
	Usage	: $stream->write_aln(@aln)
	Function: writes the $aln object into the stream in selex format
	Returns	: 1 for	success	and 0 for error
	Args	: L<Bio::Align::AlignI>	object

perl v5.32.1			  2019-12-07		Bio::AlignIO::selex(3)

NAME | SYNOPSIS | DESCRIPTION | FEEDBACK | AUTHORS - Peter Schattner | CONTRIBUTORS | APPENDIX

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