This workshop will introduce participants to the theory and practice of phylogenetic inference methods for macroevolution using RevBayes. The three-day course is sponsored by the Centre for Biodivesity Analysis at the Australian National University.
The program for the three-day will entail: (Day 1) An introduction to RevBayes, MCMC, and basic tree inference; (Day 2) Combining data from fossil and ling taxa and Historical biogeography; (Day 3) Modeling complex processes on trees and discussion/open lab. A detailed schedule is given below.
It is recommended that you review the Pre-workshop Materials listed below if you do not already have a strong understanding of likelihood-based phylogenetics, probability, and Bayesian inference. These video lectures are by Paul Lewis and provide a clear overview of these topics. Additionally, a list of papers describing RevBayes and graphical models is provided as suggested background reading.
| Date | Time | Topic | Material | Instructors |
| Tuesday | 09:30-10:30 | Lecture: Hierarchical Bayesian Modeling for Phylogenetic Inference using RevBayes | Lecture slides | 👩🏻🏫 |
| Tuesday | 10:30-11:00 | Morning Tea | ☕ | |
| Tuesday | 11:00-12:00 | Lecture: Introduction to Bayesian Inference and MCMC in RevBayes | Lecture slides | 👩🏻🏫 |
| Tuesday | 12:00-13:30 | Lunch | 🥪 | |
| Tuesday | 13:30-14:00 | Resources for using RevBayes | https://revbayes.com | 👩🏻🏫 |
| Tuesday | 14:00-15:30 | Lab: Phylogenetic Inference using RevBayes | Nucleotide substitution models | 💻 |
| Tuesday | 15:30-16:00 | Afternoon Tea | 🍵 | |
| Tuesday | 16:00-17:30 | Lab: Phylogenetic Inference using RevBayes, continued | 💻 | |
| Wednesday | 09:30-10:30 | Lecture: Bayesian Divergence-Time Estimation | Lecture slides | 👩🏻🏫 |
| Wednesday | 10:30-11:00 | Morning Tea | ☕ | |
| Wednesday | 11:30-12:30 | Lecture: Bayesian Divergence-Time Estimation, continued | 👩🏻🏫 | |
| Wednesday | 12:30-14:00 | Lunch | 🍜 | |
| Wednesday | 14:00-15:30 | Lab: Estimating Trees and Divergence Times | Combined-Evidence Analysis and the Fossilized Birth-Death Process for Analysis of Extant Taxa and Fossil Specimens | 💻 |
| Wednesday | 15:30-16:00 | Afternoon Tea | 🍵 | |
| Wednesday | 16:00-17:30 | Lab: Estimating Trees and Divergence Times, continued | 💻 | |
| Thursday | 09:30-10:30 | Lab: Historical Biogeography | Simple phylogenetic analysis using the DEC model | 💻 |
| Thursday | 10:30-11:00 | Morning Tea | ☕ | |
| Thursday | 11:00-12:30 | Lab: Modeling Branch-Heterogeneous Processes | 💻 | |
| Thursday | 12:30-14:00 | Lunch | 🍔 | |
| Thursday | 14:00-15:30 | Presentations by ANU Researchers | 🇦🇺 | |
| Thursday | 15:30-16:00 | Afternoon Tea | 🍵 | |
| Thursday | 16:00-15:30 | Discussion and Open Lab | 🗣 |