To distinguish clearly which external resources are directly related to the course and which are not, we decided to have two resource pages. The Course Resources page lists materials directly related to and used/mentioned in the course. This page lists other resources that might not be used or mentioned explicitly in the course, but that might be useful and interesting.
Apart from the books, most other materials described below are (should be) freely available online. For better or for worse, a lot of the resources I list below are dynamic and ever changing. That means occasionally links might not work, sites go offline, chapters in online books get re-arranged, etc. If any link does not work and you can’t access the materials for some reason, let me know so I can update this document.
Let me know if you find other relevant and good resources that you think could be listed here.
There isn’t really a textbook that teaches simulation modeling which is both comprehensive and suitable for beginners. The following books cover some aspects of within-host modeling and might be suitable for some learners.
The types of simulation models we discuss in this course are common in other areas of science. The study of infectious diseases on the population level (i.e. epidemiology/ecology/evolution) has a long history of using these kinds of models. There are a number of good resources dedicated to models on the population level. Most of the ideas and concepts apply directly to the within-host level. For a list of resources with a focus on population-level infectious diseases and modeling, check out the Resources sections of my online course Infectious Disease Epidemiology - A model-based approach (IDEMA). Note that the overall course website is currently under construction and there are likely parts that don’t work.