Sequence analysis

Introduction to Kingman’s coalescent

• Slides

Introduction to phylogenetic inference

• Slides

BEAST Practical

• Practical: To be completed outside of class as desired.

Additional resources

• Felsenstein. 2003. Inferring Phylogenies. Sinauer Associates.
• Yang. 2006. Computational Molecular Evolution. Oxford University Press.
• Nordborg. 2000. Coalescent theory. Handbook of Statistical Genetics.
• Pybus and Rambaut. 2009. Evolutionary analysis of the dynamics of viral infectious disease. Nature Reviews Genetics.
• Black and Dudas. 2023. An applied genomic epidemiological handbook.