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 actively supported.
Version: | 1.6.0 |
Depends: | R (≥ 3.5.0) |
Imports: | checkmate, cli, data.table, futile.logger (≥ 1.4), ggplot2, lifecycle, lubridate, methods, patchwork, posterior, purrr, R.utils (≥ 2.0.0), Rcpp (≥ 0.12.0), rlang (≥ 0.4.7), rstan (≥ 2.26.0), rstantools (≥ 2.2.0), runner, scales, stats, truncnorm, utils |
LinkingTo: | BH (≥ 1.66.0), Rcpp (≥ 0.12.0), RcppEigen (≥ 0.3.3.3.0), RcppParallel (≥ 5.0.1), rstan (≥ 2.26.0), StanHeaders (≥ 2.26.0) |
Suggests: | cmdstanr, covr, future, future.apply, here, knitr, precommit, progressr, rmarkdown, spelling, testthat, usethis, withr |
Published: | 2024-10-02 |
DOI: | 10.32614/CRAN.package.EpiNow2 |
Author: | Sam Abbott [aut], Joel Hellewell [aut], Katharine Sherratt [aut], Katelyn Gostic [aut], Joe Hickson [aut], Hamada S. Badr [aut], Michael DeWitt [aut], James M. Azam [aut], Robin Thompson [ctb], Sophie Meakin [ctb], James Munday [ctb], Nikos Bosse [ctb], Paul Mee [ctb], Peter Ellis [ctb], Pietro Monticone [ctb], Lloyd Chapman [ctb], Andrew Johnson [ctb], Kaitlyn Johnson [ctb], EpiForecasts [aut], Sebastian Funk [aut, cre] |
Maintainer: | Sebastian Funk <sebastian.funk at lshtm.ac.uk> |
BugReports: | https://github.com/epiforecasts/EpiNow2/issues |
License: | MIT + file LICENSE |
URL: | https://epiforecasts.io/EpiNow2/, https://epiforecasts.io/EpiNow2/dev/, https://github.com/epiforecasts/EpiNow2 |
NeedsCompilation: | yes |
SystemRequirements: | GNU make C++17 |
Additional_repositories: | https://stan-dev.r-universe.dev |
Language: | en-GB |
Materials: | README NEWS |
In views: | Epidemiology |
CRAN checks: | EpiNow2 results |
Package source: | EpiNow2_1.6.0.tar.gz |
Windows binaries: | r-devel: EpiNow2_1.6.0.zip, r-release: EpiNow2_1.6.0.zip, r-oldrel: EpiNow2_1.6.0.zip |
macOS binaries: | r-release (arm64): EpiNow2_1.6.0.tgz, r-oldrel (arm64): EpiNow2_1.6.0.tgz, r-release (x86_64): EpiNow2_1.6.0.tgz, r-oldrel (x86_64): EpiNow2_1.6.0.tgz |
Old sources: | EpiNow2 archive |
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