Infectious Disease Modelling: Applied Methods in R
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| Program start date | Application deadline |
| 2027-01-14 | - |
| 2027-04-15 | - |
Program Overview
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Course Details: Infectious Disease Modelling
Overview
Infectious disease modelling is a growing field and can provide valuable insights into the spread and control of infectious diseases.
Programme Details
The course begins on January 14, 2026, and consists of 10 weeks of online study with a weekly 1-hour live webinar.
Weekly Schedule
- Week 1: Introduction
- Installing R and RStudio
- Using tidyverse
- Vectors, matrices and data frames
- Writing functions
- Week 2: Analysing epidemic data
- Summarising trends
- Visualising data using ggplot2
- Estimating the growth rate and reproduction number, R
- Week 3: Epidemic models
- Building a transmission model
- The SI model
- The SIR model
- Week 4: Solving models in R
- Using deSolve
- The SI model
- The SIR model
- Week 5: Stochastic simulations
- Stochastic vs. deterministic
- Distribution functions in R
- Simulating an epidemic
- Week 6: Communicating uncertainty
- Summarising simulation results
- Plotting uncertainty
- Week 7: Modelling interventions
- Vaccination
- Mass treatment
- Social distancing
- Comparing interventions
- Week 8: Individual-based modelling
- Individual-based SIR model
- Modelling an epidemic on a square lattice
- Week 9: Fitting to data
- Fitting methods in R
- Fitting vs. testing
- Making predictions
- Week 10: Interfacing science and policy
- Transparency and reproducibility in science
- Communicating assumptions and uncertainty
- Examples from the COVID-19 pandemic
Certification
The course awards 10 CATS points, and students who complete the course will receive a digital Certificate of Completion.
Fees
The course fee is Ł360.00.
Tutor
The course tutor is Dr. Emma Davis, an infectious disease epidemiologist and mathematical modeller.
Course Aims
The course provides a foundation in R programming for infectious disease modelling, with the objective of enabling students to construct and analyse models of infectious disease transmission.
Teaching Methods
The course consists of online study with a weekly 1-hour live webinar, and students are expected to engage in independent study in preparation for the weekly webinars.
Learning Outcomes
By the end of the course, students will be able to use R to solve, simulate, analyse, and visualise basic models of infectious disease transmission, and understand the difference between mean-field and stochastic models.
Assessment Methods
Students will be set two pieces of work, with the first being a 500-word assignment due halfway through the course, and the second being a 1,500-word assignment due at the end of the course. The assessed work is marked pass or fail.
Level and Demands
The course is open to all and is offered at FHEQ Level 4 (i.e., first-year undergraduate level). Students are expected to engage in independent study in preparation for the assignments and the weekly webinar.
