EpiNow2: 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) <doi:10.12688/wellcomeopenres.16006.1>), and current best practices (Gostic et al. (2020) <doi:10.1101/2020.06.18.20134858>). 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.

Version:	1.1.0
Depends:	R (≥ 3.4.0)
Imports:	cowplot, data.table, futile.logger (≥ 1.4), future.apply, ggplot2, HDInterval, lubridate, methods, patchwork, purrr, Rcpp (≥ 0.12.0), rstan (≥ 2.18.1), rstantools (≥ 2.0.0), scales, stats, truncnorm
LinkingTo:	BH (≥ 1.66.0), Rcpp (≥ 0.12.0), RcppEigen (≥ 0.3.3.3.0), rstan (≥ 2.21.1), StanHeaders (≥ 2.21.0-5)
Suggests:	countrycode, dplyr, EpiSoon, forecastHybrid, here, kableExtra, knitr, magrittr, rmarkdown, rnaturalearth, spelling, tidyr
Published:	2020-09-01
Author:	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]
Maintainer:	Sam Abbott <sam.abbott at lshtm.ac.uk>
License:	MIT + file LICENSE
NeedsCompilation:	yes
SystemRequirements:	GNU make
Language:	en-US
Materials:	README NEWS
CRAN checks:	EpiNow2 results

Downloads:

Linking:

Please use the canonical form https://CRAN.R-project.org/package=EpiNow2 to link to this page.