EpiNow2
Estimate Real-Time Case Counts and Time-Varying Epidemiological Parameters
Estimates the time-varying reproduction number, rate of spread, and doubling time using a range of open-source tools (Abbott et al. (2020) doi:10.12688/wellcomeopenres.16006.1), and current best practices (Gostic et al. (2020) doi:10.1101/2020.06.18.20134858). It aims to help users avoid some of the limitations of naive implementations in a framework that is informed by community feedback and is actively supported.
- Version1.7.0
- R versionR (≥ 3.5.0)
- LicenseMIT
- Needs compilation?Yes
- Languageen-GB
- Last release02/05/2025
Documentation
- VignetteGetting started with EpiNow2
- VignetteCase studies and use in the literature
- VignetteUsing epinow() for running in production mode
- VignetteModel definition: estimate_infections()
- VignetteExamples: estimate_infections()
- VignetteWorkflow for Rt estimation and forecasting
- VignetteModel definition: estimate_secondary()
- VignetteModel definition: estimate_truncation()
- VignetteGaussian Process implementation details
- MaterialREADME
- MaterialNEWS
- In ViewsEpidemiology
Team
Sebastian Funk
MaintainerShow author detailsSophie Meakin
Show author detailsRolesContributorKatharine Sherratt
Show author detailsRolesAuthorLloyd Chapman
Show author detailsRolesContributorJoel Hellewell
Robin Thompson
Show author detailsRolesContributorHamada S. Badr
Peter Ellis
Show author detailsRolesContributorAndrew Johnson
Show author detailsRolesContributorNikos Bosse
Show author detailsRolesContributorKatelyn Gostic
Show author detailsRolesAuthorPietro Monticone
Show author detailsRolesContributorKaitlyn Johnson
EpiForecasts
Show author detailsRolesAuthorJames M. Azam
James Munday
Show author detailsRolesContributorSam Abbott
Paul Mee
Show author detailsRolesContributorMichael DeWitt
Joe Hickson
Show author detailsRolesAuthor
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Dependencies
- Imports18 packages
- Suggests12 packages
- Linking To6 packages