Flexible Simulations of Biological Sequence Evolution

An extensible object-oriented framework for the Monte Carlo simulation of sequence evolution written in 100 percent R. It is built on the top of the R.oo and ape packages and uses Gillespie's direct method to simulate substitutions, insertions and deletions.


Reference manual

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3.0.2 by Botond Sipos, a year ago


Browse source code at https://github.com/cran/phylosim

Authors: Botond Sipos <sbotond@gmail.com>, Gregory Jordan <greg@ebi.ac.uk>

Documentation:   PDF Manual  

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GPL (>= 3) license

Imports R.methodsS3

Depends on R.oo, ape, compoisson, ggplot2

Depended on by pcrcoal.

See at CRAN