Contact Heterogeneity and Phylodynamics: How Contact Networks Shape Parasite Evolutionary Trees
Low levels of proportional sampling may prevent accurate reconstruction of prevalence during and after the epidemic peak. We consider reconstruction to be accurate when the skyride and the predicted skyride match. The light-blue ribbons are the middle 95% of the posterior density of the skyride reconstruction. The small bars on the -axis represent the times of coalescent events in the sampled genealogy. Labels above the Panels indicate the number of tips in the sampled genealogy. Parameters: contact-network size = 10,000, Poisson degree distribution with mean = 4, transmission rate = 2, recovery rate = 1, proportion of nodes sampled = ((a), (b), and (c)).