Adaptive Preferential Sampling in Phylodynamics With an Application to SARS-CoV-2.

ABSTRACT: Longitudinal molecular data of rapidly evolving viruses and pathogens provide information about disease spread and complement traditional surveillance approaches based on case count data. The coalescent is used to model the genealogy that represents the sample ancestral relationships. The basic assumption is that coalescent events occur at a rate inversely proportional to the effective population size N _e (t), a time-varying measure of genetic diversity. When the sampling process (collection of samples over time) depends on N _e (t), the coalescent and the sampling processes can be jointly modeled to improve estimation of N _e (t). Failing to do so can lead to bias due to model misspecification. H

SUBMITTER: Cappello L 

PROVIDER: S-EPMC9409340 | biostudies-literature | 2022

REPOSITORIES: biostudies-literature