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episodes/compare-interventions.Rmd

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## Prerequisites
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+ Complete tutorials [Simulating transmission](../episodes/simulating-transmission.md) and [Modelling interventions](../episodes/modelling-interventions.md)
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Learners should familiarise themselves with following concept dependencies before working through this tutorial:
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### HINT : Running the model with default parameter values
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### Running the model with default parameter values
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We can run the Vacamole model with [default parameter values](https://epiverse-trace.github.io/epidemics/articles/vacamole.html#model-epidemic-using-vacamole) by just specifying the population object and number of time steps to run the model for:
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### SOLUTION
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1. Run the model
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```{r}

episodes/model-choices.Rmd

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## Prerequisites
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+ Complete tutorial [Simulating transmission](../episodes/simulating-transmission.md)
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### HINT
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Consider the following questions:
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### SOLUTION
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+ What is the infection/disease of interest? **Ebola**
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+ Do we need a deterministic or stochastic model? **A stochastic model would allow us to explore variation in the early stages of the outbreak**
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+ What is the outcome of interest? **Number of infections**
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### HINT : Multiple model simulations
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### Multiple model simulations
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Adapt the code from the [accounting for uncertainty](../episodes/simulating-transmission.md#accounting-for-uncertainty) section
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### SOLUTION
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1. Run the model once and plot the number of infectious individuals through time
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episodes/modelling-interventions.Rmd

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- How do I investigate the effect of interventions on disease trajectories?
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## Prerequisites
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+ Complete tutorial [Simulating transmission](../episodes/simulating-transmission.md)
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Learners should familiarise themselves with following concept dependencies before working through this tutorial:
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## Output
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```{r plot_vaccinate, echo = TRUE, message = FALSE, fig.width = 10}
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# create intervention_type column for plotting
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output_vaccinate$intervention_type <- "vaccination"

episodes/simulating-transmission.Rmd

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## Prerequisites
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Learners should familiarise themselves with following concept dependencies before working through this tutorial:
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**Mathematical Modelling** : [Introduction to infectious disease models](https://doi.org/10.1038/s41592-020-0856-2), [state variables](../learners/reference.md#state), [model parameters](../learners/reference.md#parsode), [initial conditions](../learners/reference.md#initial), [ordinary differential equations](../learners/reference.md#ordinary).
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```
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## Output
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```{r polymod_uk, echo = FALSE, message = FALSE}
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polymod <- socialmixr::polymod

episodes/template.Rmd

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## Prerequisites
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List (and hyperlink) the lessons/packages which need to be covered before this lesson
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