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Bioinformatics Advance Access originally published online on September 24, 2007
Bioinformatics 2007 23(24):3384-3385; doi:10.1093/bioinformatics/btm438
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© 2007 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

TreeSnatcher: coding trees from images

Thomas Laubach 1,2,3,4 and Arndt von Haeseler 1,2,3,4,*

1Center for Integrative Bioinformatics Vienna, Max F. Perutz Laboratories, Dr-Bohr-Gasse 9/6, A-1030 Vienna, 2University of Vienna, 3Medical University of Vienna and 4University of Veterinary Medicine Vienna, Vienna, Austria

*To whom correspondence should be addressed.


  Abstract

Summary: TreeSnatcher is a GUI-driven JAVA application for the semi-automatic recognition of multifurcating phylogenetic trees in pixel images. The program accepts an image file as input and analyzes the topology and the metrics of a tree depicted. The analysis is carried out in a multiple-stage process using algorithms from image analysis. In the end, TreeSnatcher produces a Newick tree code that represents the tree structure optionally including branch lengths. TreeSnatcher can process trees with 100 leaves or more in a few seconds.

Availability: TreeSnatcher was developed in JAVA under Mac OS X and is executable on UNIX/Linux, Windows and Mac OS X systems. The application and its documentation can be freely downloaded from http://www.cibiv.at/software/treesnatcher.

Contact: arndt.von.haeseler{at}univie.ac.at

Associate Editor: Keith Crandall

Received on July 3, 2007; revised on August 15, 2007; accepted on August 17, 2007

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