Introduction to modelling infectious disease and health economics in R

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Required software

• R is used as the main programming language. Please install at least version: R-4.0.0.
• RStudio (recommended) is a popular graphic user interface (GUI).

Tutorials: general introduction to R and SIR modelling

1. Introduction to RStudio
2. Introduction to R
3. Introduction to infectious disease modelling with R

Tutorials: Individual-Based Models (IBM)

4. Introduction to Individual-Based Models (IBMs) using R
5. IBM with random walk
6. IBM with location-specific mixing

Tutorials: Cost-effectiveness Analysis (CEA)

7. CEA: influenza
8. CEA: influenza with uncertainty
9. CEA: RSV

Extra:

• From a rate to a probability
• Discounting
• Parametric sensitity analysis: parameters
• Parametric sensitity analysis: methods

We provide some background literature here.

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The R and SIR tutorials are based on work from Sebastian Funk, Gwen Knight and Anton Camacho from the London School of Hygiene & Tropical Medicine. We fully acknowledge their work and are thankful for making them open-source via GitHub.