The Probability of Transmission Given Phylogenetic Linkage

Implements novel tools that estimate the probability of true transmission between two cases given phylogenetic linkage and the expected number of true transmission links in a sample. Methods described in Wohl, Giles, and Lessler (2021) .


Reference manual

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0.1.6 by Justin Lessler, 13 days ago

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Authors: John R Giles [aut, ctb] , Shirlee Wohl [aut, ctb] , Justin Lessler [aut, cre]

Documentation:   PDF Manual  

GPL-2 license

Imports reshape2, ggplot2, cowplot, RColorBrewer

Depends on stats

Suggests knitr, rmarkdown, testthat

See at CRAN