idoerg/ete

ETE is a Python programming toolkit for building, comparing, annotating, manipulating and visualising trees. It provides both a comprehensive API and a collection of command line tools, including utilities to work with the NCBI taxonomy tree.

README

ETE (Environment for Tree Exploration is a Python programming toolkit that assists in the automated manipulation, analysis and visualization of phylogenetic trees. Clustering trees or any other tree-like data structure are also supported.

ETE is currently developed as a tool for researchers working in phylogenetics and genomics. ETE provides specialized tools to reconstruct, compare and visualize phylogenetic trees. If you use ETE for a published work, please cite:

Jaime Huerta-Cepas, Joaquín Dopazo and Toni Gabaldón. ETE: a python
Environment for Tree Exploration. BMC Bioinformatics 2010, 11:24.

Install/Documentation

• The official web site of ETE is http://etetoolkit.org. Downloading instructions and further documentation can be found there.
• News and announcements are usually posted on twitter: http://twitter.com/etetoolkit

Gallery of examples

Contributing and BUG reporting

https://github.com/jhcepas/ete/blob/master/CONTRIBUTING.rst

Getting support

• There is a mailing list providing user support at https://groups.google.com/d/forum/etetoolkit. In order to avoid spam, messages from new users are moderated. Expect some delay until your first message and account is validated.
• For general questions on how to use ETE in bioinformatic projects, the BioStars community (http://biostars.org) provides an excellent and broader help desk. Please feel free to raise any question there and tag it with the "etetoolkit" label.