Week 1: Jan 8 - 12

Phylogenetic insights into infectious disease epidemiology

Week 2: Jan 15 - 19

No lecture Jan 15th: MLK Day

Bioinformatic pipelines for next-generation sequencing data

Week 3: Jan 22 - 26

The statistical underpinnings of maximum likelihood and Bayesian inference

Week 4: Jan 29 - Feb 2

Exploring the origin and spread of epidemics with phylogeography

Week 5: Feb 5 - 9

Coalescent theory and the population genetics of molecular evolution

Week 6: Feb 12 - 16

Inferring transmission trees and who’s infecting whom

Week 7: Feb 19 - 23

Non-tree like evolution: Detecting and accounting for recombination

Week 8: Feb 26 - March 1

Recombine often or perish: Genome evolution in bacterial and eukaryotic pathogens

Week 9: March 4 - 8

Multi-type birth-death models and adaptive molecular evolution

Week 10: March 18 - 22

Modeling transmission dynamics with SIR models
Video link

Week 11: March 25 - 29

Stochastic models for simulation and inference
Video link

Week 12: April 1 - 5

Phylodynamics: phylogenetics meets epidemiological modeling
Video link

Week 13: April 8 - 12

After the data deluge: scaling strategies for massive genomic datasets

Week 14: April 15 - 19

Predicting the (very near) future: forecasting pathogen evolution