Lecture 1 - Introduction to Systematics and Phylogenetics. Notes Slides.
Costello et al. (2013). An estimate of current diversity (that focuses on macrobial species).
Locey & Lennon (2016). An estimate of the number of extant microbial species.
Lecture 2 - The History of Phylogenetic Inference. Notes Slides.
Quinn (2017). An interesting take on the evolution of the term "cladist."
Lecture 3 - Characters: Morphology & Homology. Notes Slides.
Lecture 4 - Characters: Molecular. Notes Slides.
Lecture 5 - Sequence Alignment. Notes Slides.
Lecture 6A - Introduction to Trees and Optimality Criteria: Parsimony. Notes Slides.
Lecture 6B - Optimality Criteria: Maximum Likelihood and Minimum Evolution. Notes Slides.
Lecture 7 - Algorithmic Tree-Building Approaches. Notes Slides.
Lecture 8 - Searching Tree Space. Notes Slides.
Lecture 9 - The Importance of Models. Notes Slides.
Lecture 10 - Models of Sequence Evolution. Notes Slides.
Lecture 11 - Increasing Model Complexity. Notes Slides.
Lecture 12 - Model Selection. Notes Slides.
Lecture 13 - Consensus Trees and Nodal Support. Notes Slides.
Lecture 14 - Perfromance of Methods. Notes Slides.
Lecture 15 - Hypothesis Testing. Notes Slides.
Lecture 16 - Molecular Clocks. Notes Slides.
Lecture 17 - Partitioned Models and Mixture Models. Notes Slides.
Lecture 18 - Species-tree Estimation. Notes Slides.
Lecture 19 - Phylogenetic Networks. Notes Slides.