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Scoring infectious disease forecasts: To log or not

Repository

  • Manuscript

  • Output:

    • output/data: for data
    • output/figures: for figures.

  • Workflow: The workflow is built using the targets R package. See _targets.Rmd for workflow details and _targets.md for a rendered version. This file also contains details of how to run and inspect the workflow.

  • All R functions used in the analysis can be found in R.

Reproducibility

R package dependencies are handled using the renv R package. This means that when an R session is opened in the working directory of this repository for the first time renv will attempt to install all required R packages pinned to the correct version. To enhance reproducibility a Docker file has also been provided (.devcontainer/Dockerfile) and optionally this can be accessed via VS code or GitHub codespaces.