Bayesian Inference using the Structured Coalescent • StructCoalescent

StructCoalescent is an R package designed to perform Bayesian inference using the exact structured coalescent model. A paper describing the methods behind StructCoalescent has been published, see Roberts I, Everitt RG, Koskela J, Didelot X (2025) Bayesian Inference of Pathogen Phylogeography using the Structured Coalescent Model. PLOS Computational Biology 21(4): e1012995.

Installation

StructCoalescent can be installed from GitHub using:

if ( !require( pak, quietly = TRUE ) ){
install.packages("pak")
}
pak::pak("IanPRoberts/StructCoalescent")

and can then be loaded using

library(StructCoalescent)