NAME

       Bio::SeqIO::game -- a class for parsing and writing game-XML

SYNOPSIS

       This module is not used directly, use SeqIO.

        use Bio::SeqIO;

        my $in = Bio::SeqIO->new ( -file    => 'file.xml',
                                   -format  =>  'game',
                                   -verbose => 1 );

        my $seq = $in->next_seq;

DESCRIPTION

       Bio::SeqIO::game will parse game XML (version 1.2) or write game XML from a Bio::SeqI
       implementing object.  The XML is readable by the genome annotation editor 'Apollo'
       (www.gmod.org).  It is not backwards compatible with the previous version of game XML.
       The XML format currently used by Apollo contains a single 'main' annotated sequence, so we
       will only get a single annotated sequence in the stream when parsing a game-XML record.

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 of the bugs and their
       resolution.

       Bug reports can be submitted via the web:

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

AUTHOR - Sheldon McKay

       Email mckays@cshl.edu

APPENDIX

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

   next_seq
        Title   : next_seq
        Usage   : my $seq = $seqio->next_seq;
        Function: get the main sequence object
        Returns : a Bio::Seq::RichSeq object
        Args    : none

   write_seq
        Title   : write_seq
        Usage   : $seqio->write_seq($seq)
        Function: writes a sequence object as game XML
        Returns : nothing
        Args    : a Bio::SeqI compliant object

   _getseqs
        Title   : _getseqs
        Usage   : $self->_getseqs
        Function: An internal method to invoke the PerlSAX XML handler and get
                  the sequence objects
        Returns : an reference to an array with sequence object and annotations
        Args    : none

   _hide_dna
        Title   : _hide_dna
        Usage   : $seqio->_hide_dna
        Function: Hide the DNA for really huge sequences
        Returns : nothing
        Args    : none