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An extensible objectoriented 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.
Package details 


Author  Botond Sipos <sbotond@gmail.com>, Gregory Jordan <greg@ebi.ac.uk> 
Date of publication  20160908 20:14:57 
Maintainer  Botond Sipos <sbotond@gmail.com> 
License  GPL (>= 3) 
Version  3.0.2 
URL  https://github.com/bsipos/phylosim 
Package repository  View on CRAN 
Installation 
Install the latest version of this package by entering the following in R:

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