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
LazyData: true
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: 2020-10-27 06:54:51 UTC; master
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>
Repository: CRAN
Date/Publication: 2020-10-27 08:50:02 UTC
Built: R 4.6.0; ; 2026-04-25 13:40:27 UTC; unix
