resources.qmd

# Resources

* The workshop site: [`github.com/mrc-ide/odin-monty-workshop-2025`](https://github.com/mrc-ide/odin-monty-workshop-2025/)
* The odin/monty book: [`mrc-ide.github.io/odin-monty`](https://mrc-ide.github.io/odin-monty/)

Files from the interactive sessions:

* [`odin.R`](odin.R) - code from the introduction to odin
  - [`sir-basic-ode.R`](models/sir-basic-ode.R) - basic ODE model
  - [`sir-basic.R`](models/sir-basic.R) - basic stochastic model
  - [`sir-incidence.R`](models/sir-incidence.R) - adding incidence
  - [`sir-time.R`](models/sir-time.R) - adding time dependence
  - [`sir-interpolate-constant.R`](models/sir-interpolate-constant.R) - adding interpolation
  - [`sir-age.R`](models/sir-age.R) - adding age structure
  - [`sir-age-vax.R`](models/sir-age-vax.R) - adding vaccination

* [`fitting.R`](fitting.R) - code from fitting
  - [`incidence.csv`](data/incidence.csv) - data from the first example
  - [`sir-incidence.R`](models/sir-incidence.R) - basic SIR model with incidence
  - [`sir-compare.R`](models/sir-compare.R) - adding comparison to data
  - [`sis.csv`](data/sis.csv) - data from the second example
  - [`sis.R`](models/sis.R) - an SIS model