Speaker
Description
Bayesian phylodynamic analyses are complex and often complicated to execute which presents barriers to automation in public health contexts, where swift and reliable analyses are essential. This talk introduces Snk, a Snakemake workflow management system designed to facilitate the installation of Snakemake workflows as dynamically generated Command Line Interfaces. It will explore how the Snk framework aids in the development of reusable Bayesian phylodynamic workflows. A case study will be presented, showcasing Episodic: a Snk pipeline tailored for fitting and testing Fixed Local Clock molecular clock models to study episodic evolution. Specifically, the application of this pipeline in investigating the episodic evolution of SARS-CoV-2 variants will be discussed, emphasizing the Snk framework's capabilities and its contribution to enhancing phylodynamic analysis in public health.
