Inference of Transmission Tree from a Dated Phylogeny

Inference of transmission tree from a dated phylogeny. Includes methods to simulate and analyse outbreaks. The methodology is described in Didelot et al. (2014) , Didelot et al. (2017) .


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Reference manual

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install.packages("TransPhylo")

1.4.4 by Xavier Didelot, 5 months ago


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


Authors: Xavier Didelot [aut, cre] , Yuanwei Xu [ctb]


Documentation:   PDF Manual  


GPL (>= 2) license


Imports Rcpp, stats, graphics, ape

Suggests knitr, testthat, purrr, coda, grDevices, lattice

Linking to Rcpp

System requirements: C++11


See at CRAN