computeMatTDist

record

<p>Proportion of the MCMC output to be discarded as burnin</p>

burnin

<p>Build a matrix indicating for each pairs of individuals how many intermediates there are in the transmission chain</p>

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

computeMatTDist: Build a matrix indicating for each pairs of individuals how many intermediates there are in the transmission chain

Description

Usage

Arguments

Value