ETE is a python programming toolkit that assists in the automated manipulation, analysis and visualization of hierarchical trees. It provides a broad range of tree handling options, specific methods to work on phylogenetic and clustering analyses, bindings to the phylomeDB database, advanced node annotation, interactive visualization, and a highly customizable tree drawing engine to create PDF tree images.
Thanks to Alexis Grimaldi, the ETE package has just been accepted in MacPorts. Now, installing ETE on a mac is as simple as executing: "sudo port install py26-ete2". Note, however, that many dependences will be compiled from source, so it might take a long time the first time you install it.
Given that ETE's community has started to spread, I think a discussion list would make sense to tackle doubts and problems. So, here we have a public googlegroup: groups.google.com/group/etetoolkit. Feel free to join us and raise your questions! (Note that important news and bug fixes will be also announced in the list.)
Organized by the Gabaldon's lab at CRG and The Gulbenkian Training Programme in Bioinformatics (GTPB)
Location: Oerias, Portugal. Dates: from 23rd June to 25th June, 2010
A problem with the tree.prune() method was detected that caused long waiting times and improperly pruned trees. The method is now fixed (from ETE-2.0-rev82). Current pruning function is simpler and faster than the previous one. However, "crop" option has been temporarily removed.
Jaime Huerta-Cepas, Joaquín Dopazo and Toni Gabaldón. ETE: a python Environment for Tree Exploration. BMC Bioinformatics 2010, 11:24. [ link ]
Released ETE2 RC2 (rev69). It fixes the problems with the automatic PDF scaling process and other minor bugs.
ETE 2.0 release candidate has been launched. To download and install, please refer to the Download Section and follow the instructions.
(Note that phylomeDB remote access will be disabled until the final version is released)
