GSP
Quick Navigator

Search Site

Unix VPS
A - Starter
B - Basic
C - Preferred
D - Commercial
MPS - Dedicated
Previous VPSs
* Sign Up! *

Support
Contact Us
Online Help
Handbooks
Domain Status
Man Pages

FAQ
Virtual Servers
Pricing
Billing
Technical

Network
Facilities
Connectivity
Topology Map

Miscellaneous
Server Agreement
Year 2038
Credits
 

USA Flag

 

 

Man Pages
Bio::Phylo::Unparsers::Nexus(3) User Contributed Perl Documentation Bio::Phylo::Unparsers::Nexus(3)
 

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

There is a mailing list at <https://groups.google.com/forum/#!forum/bio-phylo> for any user or developer questions and discussions.
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>
2017-10-30 perl v5.28.1

Search for    or go to Top of page |  Section 3 |  Main Index

Powered by GSP Visit the GSP FreeBSD Man Page Interface.
Output converted with ManDoc.