Bayesian phylogenetic inference is a powerful tool for reconstructing phylogenies while accounting for complex evolutionary dynamics. It allows prior knowledge to be integrated into the inference, and also provides a detailed picture of the uncertainty present in the dataset. However, the number and complexity of the available models and options can be daunting for users, and can make it difficult to apply inference tools effectively in practice.
In this workshop, participants will learn the theoretical concepts underlying the different models involved in Bayesian phylogenetic inference, and get hands-on experience using these models in BEAST2. Particular attention will be given to more complex tree models, such as the fossilized birth-death model used to integrate past information into phylogenies, as well as rate-heterogeneous models which allow for variations in evolutionary dynamics across clades. Finally, the course will give practical information on setting up and troubleshooting analyses in BEAST2.
Participants are encouraged to bring their own dataset, as the schedule will include time for applying the concepts discussed in the workshop to their own research questions.
Participants should be familiar with Bayesian phylogenetic inference or watch the Phyloseminar introduction series by Paul Lewis (about 4h in total) before the course:
Phyloseminar #76: Primer part 1
Phyloseminar #77: Primer part 2
Phyloseminar #78: Primer part 3a
Phyloseminar #79: Primer part 3b