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tristan-myles authored Dec 17, 2024
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# Full programme
# Course programme

#### 24 March, Day 1
***Refresher***
1. Recap python basics and Bayesian inference

2. Lecture: Statistical learning

3. Lecture: Intro to Stan

4. Hands-on: Introduction to statistical learning with Stan in python
***Intro to Stan***
- Recap: python basics and Bayesian inference
- Statistical learning with Stan

#### 25 March, Day 2
***Scalable Gaussian process regression models in Stan***
1. Lecture: Intro to Gaussian processes

2. Lecture/hands-on: Scalable Gaussian process regression models in Stan

3. Hands-on: Scalable Gaussian process regression models

4. Inspirational Lecture: Two research talks from the Machine Learning and Global Health Network
***Scalable Gaussian process regression models***
- Intro to Gaussian processes
- Scalable Gaussian process regression models in Stan
- Insight into the application of methods with research talks from the Machine Learning and Global Health Network

#### 26 March, Day 3
***Gaussian processes continued***
1. Lecture/Hands-on: Scalable Gaussian process regression models

2. Group project analysing real-world datasets e.g. of Malaria cases, HIV drug resistance

3. Groups present
***Application of methods to real-world data***
- Synthesising material with a group project analysing real-world datasets from Africa
- Communicating findings and sharing insights with peers through group presentations

#### 27 March, Day 4
***Infectious Disease Modelling with Stan***
1. Lecture: Introduction to Infectious Disease Modelling and Compartmental Modelling

2. Practical: Deriving simple SIR type models with pen and paper

3. Practical: SIR models in Stan
***Infectious Disease Modelling***
- Introduction to Infectious Disease Modelling and Compartmental Modelling
- Implementing SIR compartmental models in Stan
- Research talks on work happening in South Africa in Statistics, Machine Learning, and population health

4. Inspirational Lecture: Local research talks

#### 28 March, Day 5
***Phylogenetics***
1. Lecture: Introduction to phylogenetics

2. Practical: Running a phylogenetic pipeline

3. Guided practical: More phylogenetics

4. Introduction to take-home assignment
- Introduction to phylogenetics
- Running a phylogenetic pipeline
- Social event to celebrate the end of the course

5. Social: BBQ or similar

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