This package exists to allow parsimony-style tree searches in R.
It extends the basic functionality available in the ‘phangorn’ package, with a view to making tree search faster and more efficient, and allowing user-defined optimality criteria to be employed.
Implied weighting and heuristic searches such as the Parsimony Ratchet (function:
Ratchet()) are implemented.
Install and load the library from CRAN as follows:
If you’re feeling brave, you can install the development version thus:
‘TreeSearch’ allows the implementation of various optimality criteria, including
It is also possible to specify bespoke optimality criteria.
Please note that the ‘TreeSearch’ project is released with a Contributor Code of Conduct. By contributing to this project, you agree to abide by its terms.
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