RIO - Phylogenomic Protein Function Analysis
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RIO contains modified versions of programs written by others:

1. TREE-PUZZLE
   (Strimmer, K., and A. von Haeseler. 1996. Quartet puzzling: A quartet maximum
    likelihood method for reconstructing tree topologies. Mol. Biol. Evol. 13: 964-969.) 
   

2. PHYLIP
   (Felsenstein, J. 1993. PHYLIP (Phylogeny Inference Package) version 3.5c.
    Distributed by the author.
    Department of Genetics, University of Washington, Seattle.)


Please note:
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1.  RIO uses modifications of these programs, the original versions were
    written by others:

    TREE-PUZZLE: Heiko A. Schmidt, Korbinian Strimmer, Martin Vingron, Arndt von Haeseler 

    PHYLIP: Joseph Felsenstein, see also http://evolution.genetics.washington.edu/phylip/credits.html


2.  The programs in the RIO distribution have been modified specifically
    to work within RIO and cannot be used for any other purpose.


3.  I am responsible for any accidentally introduced errors.


4.  The original can be downloaded from the following sites:
    TREE-PUZZLE: http://www.tree-puzzle.de/
    PHYLIP: http://evolution.genetics.washington.edu/phylip.html


RIO also contains hmmer (version 2.2g).
hmmer can be downloaded at: http://hmmer.wustl.edu/



Christian Zmasek, 03/09/02