Use trend filtering, a type of regularized nonparametric regression, to estimate the instantaneous reproduction number, also called Rt. This value roughly says how many new infections will result from each new infection today. Values larger than 1 indicate that an epidemic is growing while those less than 1 indicate decline. For more details about this methodology, see Liu, Cai, Gustafson, and McDonald (2024) <doi:10.1371/journal.pcbi.1012324>.
Version: 1.0.0 Depends: R (≥ 3.6.2) Imports: checkmate, cli, dspline, ggplot2, Matrix, methods, Rcpp, rlang, tibble, tvdenoising, vctrs LinkingTo: BH, dspline, Rcpp, RcppEigen, testthat, tvdenoising Suggests: dplyr, forcats, knitr, nnet, rmarkdown, testthat (≥ 3.0.0), tidyr, xml2 Published: 2025-07-05 DOI: 10.32614/CRAN.package.rtestim Author: Daniel J. McDonald [aut, cre, cph], Jiaping Liu [aut], Zhenglun Cai [ctb] Maintainer: Daniel J. McDonald <daniel at stat.ubc.ca> BugReports: https://github.com/dajmcdon/rtestim/issues License: MIT + file LICENSE URL: https://github.com/dajmcdon/rtestim, https://dajmcdon.github.io/rtestim/ NeedsCompilation: yes Materials: README NEWS CRAN checks: rtestim results Documentation: Downloads: Linking:Please use the canonical form https://CRAN.R-project.org/package=rtestim to link to this page.
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