Estimation of Transmissibility in the Early Stages of a Disease Outbreak

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) .


News

Reference manual

It appears you don't have a PDF plugin for this browser. You can click here to download the reference manual.

install.packages("earlyR")

0.0.1 by Thibaut Jombart, a year ago


http://www.repidemicsconsortium.org/earlyR


Report a bug at https://github.com/reconhub/earlyR/issues


Browse source code at https://github.com/cran/earlyR


Authors: Thibaut Jombart [aut, cre] , Anne Cori [aut] , Pierre Nouvellet [aut]


Documentation:   PDF Manual  


MIT + file LICENSE license


Imports stats, distcrete, EpiEstim, epitrix

Suggests testthat, vdiffr, roxygen2, incidence, knitr


See at CRAN