Math 8xyz - Mathematical epidemiology

This GitHub repo contains material (slides and code) for a graduate course on Mathematical epidemiology.

I am adding slides progressively; those that are present are, for the most part, “ready for consumption”. I will be recording videos to match the slides but have not started yet.

This GitHub repo

On the GitHub version of the page, you have access to all the files. You can also download the entire repository by clicking the buttons on the left. (You can also of course clone this repo, but you will need to do that from the GitHub version of the site.)

Using/copying this material

Feel free to use the material in these slides or in the folders. If you find this useful, I will be happy to know.

Slides

• 01 - Course organisation and introduction to R and Julia

• 02 - Epidemiology and mathematical epidemiology

• 03 - Compartmental models

• 04 - The Kermack-McKendrick model

• 05 - Extensions of the Kermack-McKendrick model

• 06 - Sojourn time in compartments

• 07 - The endemic SIRS model

• 08 - Next generation matrix method

• 09 - The endemic SLIRS model

• 10 - Vector-borne diseases

• 11 - Water-borne and environmentally-transmitted diseases

• 12 - Incidence functions

• 13 - Backward bifurcations

• 14 - Global asymptotic stability

• 15 - Models with periodic solutions

• 16 - Group models

• 17 - Metapopulation models – Part 1

• 18 - Metapopulation models – Part 2

• 19 - Continuous spatial spread models

• 20 - Models using age of .. something

• 21 - Advanced time of sojourn models

• 22 - Models using a deterministic discrete time formulation

• 23 - Models using continuous-time Markov chains

• 24 - Multi-type branching process approximation to CTMC

• 25 - Models using stochastic differential equations

• 26 - Agent-based models

• 27 - Network models

Additional slides and videos

On my website, I have a variety of slides sets/courses and sometimes videos that may help you go further. In particular, if you want to learn more about R, you may find these “vignettes” useful.