Type: Package
Package: rtestim
Title: Estimate the Effective Reproductive Number with Trend Filtering
Version: 1.0.2
Authors@R: c(
    person("Daniel J.", "McDonald", , "daniel@stat.ubc.ca", role = c("aut", "cre", "cph")),
    person("Jiaping", "Liu", , "jiaping.liu@stat.ubc.ca", role = "aut"),
    person("Zhenglun", "Cai", , "zhenglun.cai@stat.ubc.ca", role = "ctb")
  )
Description: 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>.
License: MIT + file LICENSE
URL: https://github.com/dajmcdon/rtestim,
        https://dajmcdon.github.io/rtestim/
BugReports: https://github.com/dajmcdon/rtestim/issues
Depends: R (>= 3.6.2)
Imports: checkmate, cli, dspline, ggplot2, Matrix, methods, Rcpp,
        rlang, tibble, tvdenoising, vctrs
Suggests: dplyr, forcats, knitr, nnet, rmarkdown, testthat (>= 3.0.0),
        tidyr, xml2
LinkingTo: BH, dspline, Rcpp, RcppEigen, testthat, tvdenoising
VignetteBuilder: knitr
Config/testthat/edition: 3
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.3.3
Config/Needs/website: rmarkdown
NeedsCompilation: yes
Packaged: 2026-03-09 00:00:00 UTC; dajmcdon
Author: Daniel J. McDonald [aut, cre, cph],
  Jiaping Liu [aut],
  Zhenglun Cai [ctb]
Maintainer: Daniel J. McDonald <daniel@stat.ubc.ca>
Repository: CRAN
Date/Publication: 2026-03-11 15:00:02 UTC
Built: R 4.5.3; x86_64-w64-mingw32; 2026-05-02 22:03:36 UTC; windows
Archs: x64
