EpiEstim: Estimate Time Varying Reproduction Numbers from Epidemic Curves
Tools to quantify transmissibility throughout an epidemic from the analysis of time series of incidence as described in Cori et al. (2013) <doi:10.1093/aje/kwt133> and Wallinga and Teunis (2004) <doi:10.1093/aje/kwh255>.
| Version: | 2.2-5 |
| Depends: | R (≥ 2.10) |
| Imports: | coarseDataTools (≥ 0.6-4), stats, graphics,reshape2,ggplot2,gridExtra,fitdistrplus,coda,incidence (≥ 1.7.0),scales, grDevices |
| Suggests: | testthat, utils,vdiffr,covr,knitr,rmarkdown |
| Published: | 2025-06-27 |
| DOI: | 10.32614/CRAN.package.EpiEstim |
| Author: | Anne Cori [aut, cre], Simon Cauchemez [ctb], Neil M. Ferguson [ctb], Christophe Fraser [ctb], Elisabeth Dahlqwist [ctb], P. Alex Demarsh [ctb], Thibaut Jombart [ctb], Zhian N. Kamvar [ctb], Justin Lessler [ctb], Shikun Li [ctb], Jonathan A. Polonsky [ctb], Jake Stockwin [ctb], Robin Thompson [ctb], Rolina van Gaalen [ctb] |
| Maintainer: | Anne Cori <a.cori at imperial.ac.uk> |
| BugReports: | https://github.com/mrc-ide/EpiEstim/issues |
| License: | GPL-2 |GPL-3 [expanded from: GPL (≥ 2)] |
| URL: | https://github.com/mrc-ide/EpiEstim |
| NeedsCompilation: | no |
| Materials: | README,NEWS |
| In views: | Epidemiology |
| CRAN checks: | EpiEstim results |
Documentation:
| Reference manual: | EpiEstim.html ,EpiEstim.pdf |
| Vignettes: | EpiEstim demonstration (source,R code) |
Downloads:
| Package source: | EpiEstim_2.2-5.tar.gz |
| Windows binaries: | r-devel:EpiEstim_2.2-5.zip, r-release:EpiEstim_2.2-5.zip, r-oldrel:EpiEstim_2.2-5.zip |
| macOS binaries: | r-release (arm64):EpiEstim_2.2-5.tgz, r-oldrel (arm64):EpiEstim_2.2-5.tgz, r-release (x86_64):EpiEstim_2.2-5.tgz, r-oldrel (x86_64):EpiEstim_2.2-5.tgz |
| Old sources: | EpiEstim archive |
Reverse dependencies:
| Reverse imports: | covid19india,earlyR,EpiLPS,ern |
| Reverse suggests: | covidmx,projections |
Linking:
Please use the canonical formhttps://CRAN.R-project.org/package=EpiEstimto link to this page.