`cPhyProb` Overview
===================

cPhyProb is a package implementing some probability calculations used in 
calculating likelihoods on phylogenies. Computationally intensive steps are 
programmed as C-extensions to python.  The package as expected to be used within
the context of software that has data structures for trees (such as the arbol_
package).

This is a work in progress and many of the functions and classes are written for
teaching purposes rather than speed.  

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Obtaining and Installing
========================

The home page is at cPhyProb_
  
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Road Map
========

* implement basic models and routines needed to calculate the likelihood of a 
  tree.

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Contributing
============
Currently, all of the code has been written by Mark Holder, but comments and 
contributions are welcome.
Email Mark_ if you would like write-access to the svn repository.
The code is available under either the GPL_ or a BSD_ license if you would 
like to reuse it.


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See also
=========

* FAQ_
* News_
* ChangeLog_
* Todo_
* Authors_
* Maintainers_
* Thanks_

.. _FAQ: ./FAQ.html
.. _News: ./News.html
.. _ChangeLog: ./ChangeLog.html
.. _Todo: ./Todo.html
.. _Authors: ./Authors.html
.. _Maintainers: ./Maintainers.html
.. _Thanks: ./Thanks.html
.. _GPL: http://www.opensource.org/licenses/gpl-license.php
.. _BSD: http://www.opensource.org/licenses/bsd-license.php
.. _GPL.txt: ./GPL.txt
.. _Python: http://www.python.org
.. _arbol: http://people.ku.edu/~mtholder/arbol
.. _cPhyProb: http://people.ku.edu/~mtholder/cPhyProb
.. _Cheese Shop: http://cheeseshop.python.org/pypi
.. _setuptools: http://peak.telecommunity.com/DevCenter/setuptools
.. _Mark: mtholder@gmail.com