Package: earlyR Title: Estimation of Transmissibility in the Early Stages of a Disease Outbreak Version: 0.0.5 Authors@R: c(person("Thibaut", "Jombart", email = "thibautjombart@gmail.com", role = c("aut", "cre")), person("Anne", "Cori", email = "a.cori@imperial.ac.uk", role = c("aut")), person("Pierre", "Nouvellet", email = "p.nouvellet@imperial.ac.uk", role = c("aut")), person("Janetta", "Skarp", email = "janetta.skarp13@imperial.ac.uk", role = c("aut")), person("Zhian N.", "Kamvar", email = "zkamvar@gmail.com", role = c("ctb")), person("Tim", "Taylor", email = "tim.taylor@hiddenelephants.co.uk", role = c("ctb"), comment = c(ORCID = "0000-0002-8587-7113")) ) Description: Implements a simple, likelihood-based estimation of the reproduction number (R0) using a branching process with a Poisson likelihood. This model requires knowledge of the serial interval distribution, and dates of symptom onsets. Infectiousness is determined by weighting R0 by the probability mass function of the serial interval on the corresponding day. It is a simplified version of the model introduced by Cori et al. (2013) . Depends: R (>= 3.3.0) License: MIT + file LICENSE Encoding: UTF-8 Imports: stats, distcrete, EpiEstim, epitrix, ggplot2 Suggests: testthat, vdiffr, roxygen2, incidence, knitr, rmarkdown, projections, covr RoxygenNote: 7.1.1 URL: https://www.repidemicsconsortium.org/earlyR/ BugReports: https://github.com/reconhub/earlyR/issues VignetteBuilder: knitr NeedsCompilation: no Packaged: 2026-10-12 23:13:52 UTC; root Author: Thibaut Jombart [aut, cre], Anne Cori [aut], Pierre Nouvellet [aut], Janetta Skarp [aut], Zhian N. Kamvar [ctb], Tim Taylor [ctb] () Maintainer: Thibaut Jombart Config/pak/sysreqs: libicu-dev libsodium-dev Repository: https://cranhaven.r-universe.dev Date/Publication: 2026-10-12 11:02:00 UTC RemoteUrl: https://github.com/cranhaven/cranhaven.r-universe.dev RemoteRef: package/earlyR RemoteSha: a678dade44517cbf5ac038cc169dfaf1ce7f7266 RemoteSubdir: earlyR