Model of hepatitis C transmission among people who inject drugs and immigrants in Norway used in Whittaker, Midtbø and Kløvstad: Monitoring progress towards the elimination of hepatitis C as a public health threat in Norway: a modelling study among people who inject drugs and immigrants, The Journal of Infectious Diseases, jiae147, https://doi.org/10.1093/infdis/jiae147 (2024)
The model is run by standing in the model directory and sourcing run_hcv_model_odin.R.
You will need to look at both that file and also plots.R, which gets automatically sourced at the end of the main run script, to see which libraries are required in order to run. For the odin/dust/odin.dust/mcstate package suite, we recommend installing the latest main-branch versions straight from their respective github repositories (see readme in those repos).
All data required to run the model is included, with one notable exception: The country-specific estimates for prevalence of chronic hepatitis C are from a non-open-access publication1. Therefore, we include here only a file with mock numbers to demonstrate the format, and it is up to the user to obtain the correct numbers and include them in the model.
Footnotes
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The Polaris Observatory HCV Collaborators, Global change in hepatitis C virus prevalence and cascade of care between 2015 and 2020: a modelling study. The Lancet Gastroenterology & Hepatology (2022), https://doi.org/10.1016/S2468-1253(21)00472-6 ↩