This project aims to collate mathematical models of infectious disease transmission, with implementations in R, Python, and Julia.

Categories of models include:

• Simple deterministic models using ordinary differential equations
  • Standard compartmental models
  • Non-exponential distributions of infectious periods
    • Delay differential equations
    • Method of stages
    • Infection-age models
• Simple stochastic models
  • Gillespie’s stochastic simulation algorithm
  • Discrete time
  • Stochastic differential equations
• Models with time-varying parameters
• Spatial models
• Network models
  • Pair approximations
  • Edge based models
• Applications to specific disease systems

Interactive notebooks are linked from the text, and can be found here.