alfacinha

Simulating the evolution of biological sequences with neighbor-dependent substitutions.

Description

alfacinha is a source-package of object-oriented Python modules for sequence evolution allowing for neighbor-dependent substitutions under GPL license.

This package is aimed at simulating the evolution of sequences along phylogenetic trees. It provides several modules to store and manipulate evolutionary models, to store and evolve a sequence, and store and manipulate evolutionary trees.

The API documentation is available here.

Download alfacinha

alfacinha sources can be downloaded in tar gz.

This package is available for UNIX, LINUX or MacOS X operating systems. It needs Python version 2.(>=2).

Untarify this file wherever you want, and do not forget to update PYTHONPATH environment variable.

Using alfacinha

alfacinha is a very easy to use tool, for which we provide a tutorial to get you started.

Need help?

If you have any problems or comments about alfacinha, please send an email to Leonor Palmeira.

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