Phylogenetic analysis of DNA and other data 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.
Detailed instructions on how to install and use the POY utility on your Mac are available HERE.
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What's New in This Release:
- Bugs Fixed:
- command swap(parallel) had issues with convergence and filtering trees.