This semester we are studying computational phylogenetics. Many of the students haven’t used the R statistics environment before and learning to conduct analyses in R is one of the primary goals of lab this year, so I try to incorporate exercises in R as much as possible.
Lab 5. Models of molecular evolution and maximum likelihood
Lab 7. Bayesian analyses and post hoc analyses
Lab 8. Statistical tests on phylogenies: discordance among hypotheses
Lab 9. Gene trees in species trees