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[Molecular-evolution] Comparing distances for two trees

ppuigbo from gmail.com via mol-evol%40net.bio.net (by ppuigbo from gmail.com)
Tue Nov 18 11:52:09 EST 2008

Last year, we published(*) a new software to compare phylogenetic trees that
may be useful for your project. The program is called TOPD/FMTS and it's
freely available at http://genomes.urv.cat/topd <http://genomes.urv.es/topd>

(*) Puigbo P, Garcia-Vallve S, McInerney JO. Bioinformatics, 2007.

2008/11/18 <areitzel from whoi.edu>

> I am interested in comparing phylogenetic distances between two trees.  The
> two
> trees are likelihood trees for different proteins, but each tree has the
> same
> taxa to facilitate pairwise comparisons.  I was hoping someone could give
> me
> some advice on how to compare these two distance matrices.  The trees do
> not
> have the same topology so the order of the taxa varies between the distance
> matrices for the two proteins.  The goal for this project is to test for
> co-evolution of the two proteins via regression.  Thanks in advance for any
> assistance.
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