probPTreeGivenTTreeR

Combined phylogenetic/transmission tree

ctree

Vector of hosts for which to calculate the probability, or NULL for all

Calculate the probability of a phylogenetic tree given a transmission tree

Inference of transmission tree from a dated phylogeny.
Includes methods to simulate and analyse outbreaks.
The methodology is described in
Didelot et al. (2014) <doi:10.1093/molbev/msu121>,
Didelot et al. (2017) <doi:10.1093/molbev/msw275>.

Xavier Didelot

probPTreeGivenTTreeR: Calculate the probability of a phylogenetic tree given a transmission tree

Description

Usage

Arguments

Value