Scott Edwards
Arrival and Departure
June 1 to June 6
Institutional Website
Lecture Material
2022: Lecture part I
2022: Lecture part II
Lab Material (not presented in class, but available for exploration)
2019: Lecture part I
2019: Lecture part II
2019: Tutorial slides
2019: Edwards Lab data files and documentation (zip file)
2019: Phybase (at Liang Liu lab website)
2019: MP-EST (at Liang Liu lab website)
2019: Conservation analysis R script
Key Papers
Edwards (2009): A perspective arguing for the utility of phylogenetic methods using the multispecies coalescent
Liu et al. (2009): A review of methods and issues surrounding “species tree” phylogenetic methods
Degnan & Rosenberg (2009): An excellent review of the multispecies coalescent, including discussion of the anomaly zone
Liu et al. (2010): MP-EST: A maximum pseudolikelihood species tree method
Cloutier et al. (2019): Whole-genome analyses resolve the phylogeny of flightless birds (Palaeognathae) in the presence of an empirical anomaly zone. Syst. Biol.
Sackton et al. (2019): Convergent regulatory evolution and loss of flight in palaeognathous birds. Science 364: 74-78
Hu, et al. (2019): Bayesian detection of convergent rate changes of conserved noncoding elements on phylogenetic trees. Mol. Biol. Evol. 36: 1086-1110
Rheindt et al. (2014): An empirical example of using SNPs for phylogenetics