Bio::Phylo::Unparsers::Nexus - Serializer used by Bio::Phylo::IO, no serviceable parts inside

This module turns a Bio::Phylo::Matrices::Matrix object into a nexus formatted matrix. It is called by the Bio::Phylo::IO facade, don't call it directly. You can pass the following additional arguments to the unparse call:

	# an array reference of matrix, forest and taxa objects:
	-phylo => [ $block1, $block2 ]

	# the arguments that can be passed for matrix objects, 
	# refer to Bio::Phylo::Matrices::Matrix::to_nexus:
	-matrix_args => {}

	# the arguments that can be passed for forest objects, 
	# refer to Bio::Phylo::Forest::to_nexus:
	-forest_args => {}

	# the arguments that can be passed for taxa objects, 
	# refer to Bio::Phylo::Taxa::to_nexus:
	-taxa_args => {}	

	OR:

	# for backward compatibility:
	-phylo => $matrix	

Bio::Phylo::IO

The nexus serializer is called by the Bio::Phylo::IO object.

Bio::Phylo::Manual

Also see the manual: Bio::Phylo::Manual and http://rutgervos.blogspot.com.

If you use Bio::Phylo in published research, please cite it:

Rutger A Vos, Jason Caravas, Klaas Hartmann, Mark A Jensen and Chase Miller, 2011. Bio::Phylo - phyloinformatic analysis using Perl. BMC Bioinformatics 12:63. http://dx.doi.org/10.1186/1471-2105-12-63

 $Id: Nexus.pm 1660 2011-04-02 18:29:40Z rvos $