debian man page for bio::seqio::gbxml

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

NAME
       Bio::SeqIO::gbxml - GenBank sequence input/output stream using SAX

SYNOPSIS
       It is probably best not to use this object directly, but rather go through the SeqIO handler system. To read a GenBank XML file:

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

	  while ( my $bioSeqObj = $stream->next_seq() ) {
	       # do something with $bioSeqObj
	  }

       To write a Seq object to the current file handle in GenBank XML format:

	  $stream->write_seq( -seq => $seqObj);

       If instead you would like a XML::DOM object containing the GBXML, use:

	  my $newXmlObject = $stream->to_bsml( -seq => $seqObj);

DEPENDENCIES
       In addition to parts of the Bio:: hierarchy, this module uses:

       XML::SAX

DESCRIPTION
       This object can transform Bio::Seq objects to and from GenBank XML flatfiles.

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

   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 - Ryan Golhar
       Email golharam-at-umdnj-dot-edu

METHODS
   next_seq
       Title   : next_seq Usage   : my $bioSeqObj = $stream->next_seq Function: Retrieves the next sequence from a SeqIO::gbxml stream.  Returns :
       A reference to a Bio::Seq::RichSeq object Args	 :

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