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) <doi:10.1093/aje/kwt133>.
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] (<https://orcid.org/0000-0002-8587-7113>)
Maintainer: Thibaut Jombart <thibautjombart@gmail.com>
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
