treepplr is the R Interface to TreePPL, a probabilistic programming language for phylogenetics.
treepplr converts data to a format readable by TreePPL, reads the TreePPL output, and connects to downstream analyses in model-specific packages, such as the evolnets package for the host repertoire evolution model.
See the package's documentation here.
You can install treepplr like so:
# install.packages("devtools")
# library(devtools)
devtools::install_github("treeppl/treepplr")