A method for detecting transmission-enhancing mutations in viral genomes.

Abstract excerpt

The SARS-CoV-2 pandemic of 2020 was characterized by outbreaks of viral strains exhibiting increased rates of between-host transmission, so-called variants of concern . These outbreaks highlighted the need for better tools for identifying the genetic basis for transmission-rate variation. Here, we develop a Bayesian method based on a stochastic birth-death-mutation-sampling model for estimating which nucleotide...

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