Bio::Phylo - An object-oriented Perl toolkit 
for analyzing and manipulating phyloinformatic data. 

DESCRIPTION

Phylogenetics is the branch of evolutionary biology
that deals with reconstructing and analyzing the 
tree of life. This distribution provides objects and
methods to aid in handling and analyzing phylogenetic
data.

COMPATABILITY
 
Bio::Phylo installs without problems on most popular,
current platforms (Win32, OSX, Linux, Solaris, IRIX,
FreeBSD, OpenBSD, NetBSD), on Perl versions >= 5.8.0

For a list of automated test results visit:

http://testers.cpan.org/show/Bio-Phylo.html

INSTALLATION

Bio::Phylo has the following required dependencies:
	Scalar::Util (core)
	Test::More (core)
	IO::File (core)
	IO::String (non-core, but installs everywhere)

And the following optional dependencies:
	SVG (to draw trees as SVG vector drawings)
	Math::Random (to simulate trees)
	XML::Twig (to parse nexml)

These modules are all available from
http://www.cpan.org, and should install without
problems on most platforms.
 
To install the Bio::Phylo distribution, run the
following commands: 

perl Makefile.PL
make
make test
make install
 
(For platform specific information on what 'make'
command to use, check "perl -V:make". On Win32 this
usually returns "make='nmake';", which means you'll
need the 'nmake' utility:
http://support.microsoft.com/default.aspx?scid=kb;en-us;Q132084)

AUTHOR

Rutger Vos, rutgeraldo@gmail.com, http://rutgervos.blogspot.com

BUGS

Please report any bugs or feature requests to 
bug-phylo@rt.cpan.org, or through the web interface 
at http://rt.cpan.org/NoAuth/ReportBug.html?Queue=Phylo. 
I will be notified, and then you'll automatically 
be notified of progress on your bug as I make changes. 
 
ACKNOWLEDGEMENTS

The author would like to thank the BioPerl project
for providing the community with a terrific toolkit
that other software, such as this, can be built on 
(http://www.bioperl.org); Jason Caravas, Klaas Hartmann, 
Mark A. Jensen, Chase Miller and Aki Mimoto for their 
contributions (code and otherwise) to this project;
and Arne Mooers from the FAB* lab (http://www.sfu.ca/~fabstar) 
for comments and requests. 

SEE ALSO

Read the manual: perldoc Bio::Phylo::Manual

CITATION

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.
doi:10.1186/1471-2105-12-63

COPYRIGHT & LICENSE

Copyright 2005-2010 Rutger Vos, All Rights Reserved. 
This program is free software; you can redistribute 
it and/or modify it under the same terms as Perl itself.