debian man page for bio::alignio::nexml

Bio::AlignIO::nexml(3pm)				User Contributed Perl Documentation				  Bio::AlignIO::nexml(3pm)

NAME
       Bio::AlignIO::nexml - NeXML format sequence alignment input/output stream driver

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

DESCRIPTION
       This object can transform Bio::SimpleAlign objects to and from NeXML format. For more information on NeXML, visit <http://www.nexml.org>.

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

AUTHORS
       Chase Miller

CONTRIBUTORS
       Mark Jensen, maj@fortinbras.us Rutger Vos, rutgeraldo@gmail.com

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.
	Returns : Bio::Align::AlignI object - returns 0 on end of file
		       or on error
	Args	:

       See Bio::Align::AlignI

   rewind
	Title	: rewind
	Usage	: $alnio->rewind
	Function: Resets the stream
	Returns : none
	Args	: none

   doc
	Title	: doc
	Usage	: $treeio->doc
	Function: Returns the biophylo nexml document object
	Returns : Bio::Phylo::Project
	Args	: none or Bio::Phylo::Project object

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

       See Bio::Align::AlignI

perl v5.14.2							    2012-03-02						  Bio::AlignIO::nexml(3pm)