POY 4.1.2 / 5.0.0 Beta
A reliable and useful utility that helps you to perform multiple phylogenetic analysis of DNA and other simulations using dynamic homology
POY is particular in that it can perform true alignment and phylogeny inference (i.e. input sequences need not to be prealigned). Insertions, deletions, and rearrangements, can then be included in the overall tree score (under Maximum Parsimony), or in the model (under Maximum Likelihood). A variety of heuristic algorithms have been developed for this purpose and are implemented in POY.
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What's New in version 5.0.0 Beta
- New Features:
- report trees with branches would work for likelihood characters, but would
- not report parsimony branch lengths. The new command allows printing the
- branch lengths from three different methods (see below), these options are