Accounting for reporting delays in real-time phylodynamic analyses with preferential sampling
Fig 3
Comparison of real-time phylodynamic methods to infer the effective population size trajectory for a single simulation in scenario C, with reporting delays and preferential sampling present.
Median estimates of the effective population size and 95% credible intervals are plotted. The BNPR PS model was also applied retrospectively with all of the sampled sequences, regardless of if they were reported by time zero, to serve as a reference for comparison for the three real-time inference methods. The white background indicates the recent time period likely suffering from reporting delays, specifically where reporting probabilities (RPs) are below 90%, and is therefore the region of interest.