The Impacts of Low Diversity Sequence Data on Phylodynamic Inference during an Emerging Epidemic
Anthony Lam, Sebastian Duchene
Viruses | MDPI | Published : 2021
Phylodynamic inference is a pivotal tool in understanding transmission dynamics of viral outbreaks. These analyses are strongly guided by the input of an epidemiological model as well as sequence data that must contain sufficient intersequence variability in order to be informative. These criteria, however, may not be met during the early stages of an outbreak. Here we investigate the impact of low diversity sequence data on phylodynamic inference using the birth-death and coalescent exponential models. Through our simulation study, estimating the molecular evolutionary rate required enough sequence diversity and is an essential first step for any phylodynamic inference. Following this, the ..View full abstract
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Awarded by Australian Research Council
This work was supported by the Australian Research Council, via grant DE190100805 (awarded to S.D.).