NAME

Bio::TreeIO::nexml - A TreeIO driver module for parsing NeXML tree files

SYNOPSIS

use Bio::TreeIO;
my $in = Bio::TreeIO->new(-file => 'data.nexml' -format => 'Nexml');
while( my $tree = $in->next_tree ) {
}

DESCRIPTION

This is a driver module for parsing tree data in a NeXML format. For more information on NeXML, visit http://www.nexml.org.

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 the Bioperl mailing list. 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://redmine.open-bio.org/projects/bioperl/

AUTHOR - Chase Miller

Email chmille4@gmail.com

APPENDIX

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

next_tree

Title   : next_tree
Usage   : my $tree = $treeio->next_tree
Function: Gets the next tree in the stream
Returns : L<Bio::Tree::TreeI>
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

rewind

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

write_tree

Title   : write_tree
Usage   : $treeio->write_tree($tree);
Function: Writes a tree onto the stream
Returns : none
Args    : L<Bio::Tree::TreeI>