1.
Extensive treatment of model and MCMC updating steps.
PANGO lineage classifications of the sampled sequences.
Comparison of MCMC and p(MC 3 ) with and without the neighbour-joining tree initialization step.
Type of errors in the estimated transmission tree.
Analysis of simulated outbreaks with fixed model parameters in the MCMC runs, while varying the number of introductions and coalescent rate in the history host.
Analysis of simulated outbreaks with similar parameter values as the SARS-CoV-2 outbreak in mink farms.
Analysis of simulated outbreaks with similar parameter values as the SARS-CoV-2 outbreak in mink farms, with only 50 base pairs of the genome under mutation.
Maximum parent credibility transmission tree with with-host phylogenetic trees for SARS-CoV-2 outbreak in mink farms.
Maximum parent credibility phylogenetic tree for SARS-CoV-2 outbreak in mink farms.
Histogram of number of introductions for the mink farms.
