Fast hospital discharge rates blur within-hospital ‘transmission footprint’ in bacterial genomes, as showcased with Staphylococcus aureus
Table 5
Summary of the Bayesian posterior inference results from scenarios, where samples were obtained exclusively from the hospital. Scenario abbreviations are as follows: HDT = hospital-driven transmission, ET = equal transmission, and CDT = community-driven transmission. The column labelled indicates the number of replicates (out of 100) in which all parameters had an effective sample size (ESS) of at least 200. Epidemiological parameters not listed in the third column (e.g., admission and discharge rates) were fixed to their true values. Sampling proportions were fixed to their true values in all scenarios except CDT”. The ‘Relative error‘ column reflects the average relative absolute deviation, calculated as
/truth. The ‘Relative bias’ column shows the average relative deviation of the median estimate from the true value, calculated as
. Relative 95% highest posterior density (HPD) widths are computed as
. The ‘95% HPD accuracy’ column indicates the number of replicates in which the 95% HPD interval included the true value for each parameter.