debian man page for bio::seqio::chaosxml

Bio::SeqIO::chaosxml(3pm)				User Contributed Perl Documentation				 Bio::SeqIO::chaosxml(3pm)

NAME
       Bio::SeqIO::chaosxml - chaosxml sequence input/output stream

SYNOPSIS
	   #In general you will not want to use this module directly;
	   #use the chaosxml format via SeqIO

	   $outstream = Bio::SeqIO->new(-file => $filename, -format => 'chaosxml');

	   while ( my $seq = $instream->next_seq() ) {
	      $outstream->write_seq($seq);
	   }

DESCRIPTION
       This object can transform Bio::Seq objects to and from chaos files.

       CURRENTLY WRITE ONLY

       ChaosXML is an XML mapping of the chado relational database; for more information, see http://www.fruitfly.org/chaos-xml

       Chaos can have other syntaxes than XML (eg S-Expressions, Indented text)

       See Bio::SeqIO::chaos for a full description

VERY VERY IMPORTANT
       !!!!!!!!!!!CHADO AND CHAOS USE INTERBASE COORDINATES!!!!!!!!!!!!!!!!

FEEDBACK
   Mailing Lists
       User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to one
       of the Bioperl mailing lists.  Your participation is much appreciated.

	 bioperl-l@bioperl.org			- General discussion
	 http://bioperl.org/wiki/Mailing_lists	- About the mailing lists

   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://redmine.open-bio.org/projects/bioperl/

AUTHOR - Chris Mungall
       Email cjm@fruitfly.org

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

perl v5.14.2							    2012-03-02						 Bio::SeqIO::chaosxml(3pm)