Estimate Real-Time Case Counts and Time-Varying Epidemiological Parameters

Estimates the time-varying reproduction number, rate of spread, and doubling time using a range of open-source tools (Abbott et al. (2020) ), and current best practices (Gostic et al. (2020) ). It aims to help users avoid some of the limitations of naive implementations in a framework that is informed by community feedback and is under active development.


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Reference manual

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install.packages("EpiNow2")

1.1.0 by Sam Abbott, 18 days ago


Browse source code at https://github.com/cran/EpiNow2


Authors: Sam Abbott [aut, cre] , Joel Hellewell [aut] , Robin Thompson [aut] , Katelyn Gostic [aut] , Katharine Sherratt [aut] , Sophie Meakin [aut] , James Munday [aut] , Nikos Bosse [aut] , Joe Hickson [aut] , Paul Mee [ctb] , Peter Ellis [ctb] , EpiForecasts [aut] , Sebastian Funk [aut]


Documentation:   PDF Manual  


MIT + file LICENSE license


Imports cowplot, data.table, futile.logger, future.apply, ggplot2, HDInterval, lubridate, methods, patchwork, purrr, Rcpp, rstan, rstantools, scales, stats, truncnorm

Suggests countrycode, dplyr, EpiSoon, forecastHybrid, here, kableExtra, knitr, magrittr, rmarkdown, rnaturalearth, spelling, tidyr

Linking to BH, Rcpp, RcppEigen, rstan, StanHeaders

System requirements: GNU make


See at CRAN