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TCS: Phylogenetic network estimation using statistical parsimony

© 2000-2005 Mark Clement, Jacob Derington, Steve Woolley and David Posada

Current version is 1.21

TCS is a Java computer program to estimate gene genealogies including multifurcations and/or reticulations (i.e. networks). The network estimation implemented in TCS is also known as Statistical Parsimony, which is described in Templeton, A. R., K. A. Crandall and C. F. Sing. 1992. A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping and DNA sequence data. III. Cladogram estimation. Genetics 132:619-633. For a review on networks and instraspecific genealogies you may read Posada D and Crandall KA. 2001. Trends in Ecology and Evolution 16 (1): 37-45

Operative systems
A jar file is provided that should run in any OS (macintosh, windows, unix-like) with a java virtual machine installed.

Clement M, Posada D and Crandall K. 2000. TCS: a computer program to estimate gene genealogies. Molecular Ecology 9(10): 1657-1660

TCS registration form

Before download this program, I ask users to register. This allows me to inform about bugs and updates in a more efficient way. Indeed, users will be able to unregister at any time, and email addresses will not be used for any purpose other than to inform about this program.


Any comments?

Disclaimer: These programs are free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version. These programs are distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

Correspondence about this program should be addressed to David Posada at

This document last modified Thursday June 06, 2013