Full programme

24 March, Day 1

Refresher

  1. Welcome: Introductions (9.00 - 9.30)

  2. Recap python basics and Bayesian inference (09.30 – 10:30)

  3. Break (10.30-11.00)

  4. Lecture: Statistical learning (11.00-12.00)

  5. Lecture: Intro to Stan (12.00 - 13:00)

  6. Lunch (13.00 - 13.30)

  7. Hands-on: Introduction to statistical learning with Stan in python (13.30 - 15.30)

  8. Recap session (15:30-16:00)

25 March, Day 2

Scalable Gaussian process regression models in Stan

  1. Q&A in break-out rooms (max 10 ppl) (09.00 - 09.30)

  2. Lecture: Intro to Gaussian processes (09.30-10.30)

  3. Break (10.30-11.00)

  4. Lecture/hands-on: Scalable Gaussian process regression models in Stan (11.00-13.00)

  5. Lunch (13.00-13.30)

  6. Hands-on: Scalable Gaussian process regression models (13.30-14.30)

  7. Inspirational Lecture: Two research talks from the Machine Learning and Global Health Network (14.30 - 15.30)

  8. Recap session (15:30-16:00)

26 March, Day 3

Gaussian processes continued

  1. Q&A in break-out rooms (max 10 ppl) (09.00 - 09.30)

  2. Lecture/Hands-on: Scalable Gaussian process regression models (09:30 – 10:30)

  3. Break (10.30-11.00)

  4. Group project analysing real-world datasets e.g. of malaria cases, spatial data on drought, HIV drug resistance (11.00 - 13:00)

  5. Lunch (13:00-13:30)

  6. Group project continued (13.30 - 15.00)

  7. Groups present (15.00-16.00)

27 March, Day 4

Infectious Disease Modelling with Stan

  1. Lecture: Introduction to Infectious Disease Modelling and Compartmental Modelling (09.00-10:20)

  2. Break (10.20-10.50)

  3. Practical: Deriving simple SIR type models with pen and paper (10:50 – 11:30)

  4. Practical: SIR models in Stan (11.30-13:00)

  5. Lunch (13:00-13:30)

  6. Practical: SIR models in Stan (continued) (13.30-15.00)

  7. Inspirational Lecture: Local research talks (two-three) (15.00 - 16.00)

28 March, Day 5

Phylogenetics

  1. Recap session and Q&A in break-out rooms (max 10 ppl) (09.00 - 09.30)

  2. Lecture: Introduction to phylogenetics (09:30-10:30)

  3. Break (10.30-11.00)

  4. Practical: Running a phylogenetic pipeline (11:00-13:00)

  5. Lunch (13:00-13:30)

  6. Guided practical: More phylogenetics (13:30 – 14:30)

  7. Q&A (14:30 - 15:00)

  8. Quiz (15:00 - 15:30)

  9. Introduce take-home assignment (15:30-16:00)

  10. Social: BBQ or similar (18.00 - 20.00)