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Copycat
Co-phylogenetic Analysis Tool
CopyCat provides an easy and fast access to cophylogenetic analyses.
It incorporates a wrapper for the program ParaFit, which conducts a statistical test for the presence of congruence between host and parasite phylogenies.
CopyCat offers various features, such as the creation of customized host-parasite association data and the computation of phylogenetic host/parasite trees based on the NCBI taxonomy.
Use of the program is free for academic purposes at an academic institute. For all other uses, please contact the authors.
Paper
If you use CopyCat, please cite the
following
paper:
Jan P. Meier-Kolthoff, Alexander F. Auch, Daniel H. Huson, Markus
Göker. COPYCAT: Co-phylogenetic Analysis tool. Bioinformatics,
23(7):898-900, 2007. PDF
Supplemental material:
Associations file
Result of Parafit Run
Result compiled according to smut
fungi genera
Screenshot (180 kB)
Users of AxParafit and AxPcoords may also cite:
Alexandros Stamatakis, Alexander F. Auch, Jan P. Meier-Kolthoff, Markus Göker.
AxPcoords & parallel AxParafit: statistical co-phylogenetic analyses on thousands of taxa.
BMC Bioinformatics 8:405, 2007.
PDF
Download
new version 1.14, including AxParafit and AxPcoords which are highly optimized versions of Pierre Legendre's Parafit and DistPCoA programs:
CopyCat_macos_1_14.dmg,
15MB (MacOS X, PPC and Intel)
CopyCat_windows_1_14.exe,
16 MB
CopyCat_linux_1_14.sh,
15 MB (Linux x86 32bit with GTK 2.0 libraries is currently supported)
Older versions can be found here.
These installers do not contain a Java RunTime Environment (JRE). Please make sure that you have one installed, version 1.5.0 or higher.
Manual
To find out more about the program, take a look at the user manual.
