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The ETE toolkit
A Python Environment for Tree Exploration

New ETE release: ete-2.2

A new ETE version (2.2) is now available. It includes several new features and bug fixes. Most notably,

- A new EvolTree class type, developed by Francois Serra (at CNAG), which can be used to run adaptation tests and visualize results directly on tree branches and alignments.

- Several new face types are available to plot sequence domains, PieCharts and Barplots (see extended changelog for some examples)

- The TreeKO method (Marcet-Houben and Gabaldón, 2011), used to render all species trees derived from a duplicated gene family tree, has been ported and optimized as a built-in function of the PhyloTree class.

- The core Tree object includes some new features, such as a robinson-foulds metric function, new traversing methods including the iteration of node ancestors, custom collapsing options, an improved tree pruning method, and several function to resolve polytomies and check the monophyly of custom attributes within a given node.

 
More details at http://pythonhosted.org/ete2/changelog/changelog2.2.html

 

ETE is developed as an academic free software tool. If you find ETE useful for your work, please cite:

Jaime Huerta-Cepas, Joaquín Dopazo and Toni Gabaldón. ETE: a python Environment for Tree Exploration. BMC Bioinformatics 2010, 11:24. doi:10.1186/1471-2105-11-24

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The ETE Toolkit was originally developed at the bioinformatics department of CIPF and greatly improved at the comparative genomics unit of CRG. At present, ETE is maintained by Jaime Huerta-Cepas at the Structural and Computational Biology unit of EMBL (Heidelberg, Germany).