Epiverse-TRACE How-to guides

The Epiverse-TRACE How-to guides aim to collect recipe-like reproducible scripts to complete specific Outbreak analytics tasks following concrete steps using R packages. ¹

Describe case data

Title
How to estimate the growth rate stratified by groups?
How to estimate the growth rate?
How to extract the serial interval distribution from a systematic review?
How to get an incidence object from days to weeks?

Quantify transmission

Title
How to quantify the time-varying reproduction number (R_t)?
How to simulate the effective reproductive number (R_eff) with heterogeneity in social contact?

Create short-term forecast

Title
How to project the future trajectory of the outbreak?

Simulate transmission scenarios

Title
How to create heterogeneous susceptibility matrices?
How to simulate the final size with heterogeneity in social contact and infection susceptibility?

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Footnotes

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