calibration_intro.Rmd

---
title: "Calibration of the in-built transmission model"
author: "Bob Verity"
date: "Last updated: `r format(Sys.Date(), '%d %b %Y')`"
output: rmarkdown::html_vignette
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  %\VignetteEngine{knitr::rmarkdown}
  %\VignetteEncoding{UTF-8}
---

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```{r, echo=FALSE, warning=FALSE, message=FALSE}
set.seed(1)
library(SIMPLEGEN)
library(ggplot2)
library(dplyr)
```

This model is calibrated against 3 epidemiological datasets:

- Prevalence vs. incidence relationships
- Diagnostic sensitivity data
- Age-incidence data

The current model calibration is far from perfect! It serves as a baseline that can hopefully be improved in subsequent versions.