Type: Package
Package: EpiNow2
Title: Estimate Real-Time Case Counts and Time-Varying Epidemiological
        Parameters
Version: 1.7.1
Authors@R: 
    c(person(given = "Sam",
             family = "Abbott",
             role = c("aut"),
             email = "sam.abbott@lshtm.ac.uk",
             comment = c(ORCID = "0000-0001-8057-8037")),
      person(given = "Joel",
             family = "Hellewell",
             role = "aut",
             email = "joel.hellewell@lshtm.ac.uk",
             comment = c(ORCID = "0000-0003-2683-0849")),
      person(given = "Katharine",
             family = "Sherratt",
             role = "aut",
             email = "katharine.sherratt@lshtm.ac.uk"),
      person(given = "Katelyn",
             family = "Gostic",
             role = "aut",
             email = "kgostic@uchicago.edu"),
      person(given = "Joe",
             family = "Hickson",
             role = "aut",
             email = "joseph.hickson@metoffice.gov.uk"),
      person(given = "Hamada S.",
             family = "Badr",
             role = "aut",
             email = "badr@jhu.edu",
             comment = c(ORCID = "0000-0002-9808-2344")),
      person(given = "Michael",
             family = "DeWitt",
             role = "aut",
             email = "me.dewitt.jr@gmail.com",
             comment = c(ORCID = "0000-0001-8940-1967")),
      person(given = "James M.",
             family = "Azam",
             role = "aut",
             email = "james.azam@lshtm.ac.uk",
             comment = c(ORCID = "0000-0001-5782-7330")),
      person(given = "Robin",
             family = "Thompson",
             role = "ctb",
             email = "robin.thompson@lshtm.ac.uk"),
      person(given = "Sophie",
             family = "Meakin",
             role = "ctb",
             email = "sophie.meaking@lshtm.ac.uk"),
      person(given = "James",
             family = "Munday",
             role = "ctb",
             email = "james.munday@lshtm.ac.uk"),
      person(given = "Nikos",
             family = "Bosse",
             role = "ctb"),
      person(given = "Paul",
             family = "Mee",
             role = "ctb",
             email = "paul.mee@lshtm.ac.uk"),
      person(given = "Peter",
             family = "Ellis",
             role = "ctb",
             email = "peter.ellis2013nz@gmail.com"),
      person(given = "Pietro",
             family = "Monticone",
             role = "ctb",
             email = "pietro.monticone@edu.unito.it"),
      person(given = "Lloyd",
             family = "Chapman",
             role = "ctb",
             email = "lloyd.chapman1@lshtm.ac.uk "),
      person(given = "Andrew",
             family = "Johnson",
             role = "ctb",
             email = "andrew.johnson@arjohnsonau.com"),
       person(given = "Kaitlyn",
           family = "Johnson",
           role = "ctb",
           email = "johnsonkaitlyne9@gmail.com",
           comment = c(ORCID = "0000-0001-8011-0012")),
      person(given = "EpiForecasts",
             role = "aut"),
      person(given = "Sebastian",
             family = "Funk",
             role = c("aut", "cre"),
             email = "sebastian.funk@lshtm.ac.uk",
             comment = c(ORCID = "0000-0002-2842-3406"))
    )
Description: 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.
License: MIT + file LICENSE
URL: https://epiforecasts.io/EpiNow2/,
        https://epiforecasts.io/EpiNow2/dev/,
        https://github.com/epiforecasts/EpiNow2
BugReports: https://github.com/epiforecasts/EpiNow2/issues
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
Suggests: cmdstanr, covr, future, future.apply, here, knitr, precommit,
        progressr, rmarkdown, spelling, testthat, usethis, withr
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)
Additional_repositories: https://stan-dev.r-universe.dev
Biarch: true
Config/testthat/edition: 3
Encoding: UTF-8
Language: en-GB
LazyData: true
RoxygenNote: 7.3.2.9000
NeedsCompilation: yes
SystemRequirements: GNU make C++17
VignetteBuilder: knitr
Packaged: 2025-02-19 16:50:44 UTC; eidesfun
Author: Sam Abbott [aut] (<https://orcid.org/0000-0001-8057-8037>),
  Joel Hellewell [aut] (<https://orcid.org/0000-0003-2683-0849>),
  Katharine Sherratt [aut],
  Katelyn Gostic [aut],
  Joe Hickson [aut],
  Hamada S. Badr [aut] (<https://orcid.org/0000-0002-9808-2344>),
  Michael DeWitt [aut] (<https://orcid.org/0000-0001-8940-1967>),
  James M. Azam [aut] (<https://orcid.org/0000-0001-5782-7330>),
  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] (<https://orcid.org/0000-0001-8011-0012>),
  EpiForecasts [aut],
  Sebastian Funk [aut, cre] (<https://orcid.org/0000-0002-2842-3406>)
Maintainer: Sebastian Funk <sebastian.funk@lshtm.ac.uk>
Repository: CRAN
Date/Publication: 2025-02-19 23:40:09 UTC
Built: R 4.6.0; x86_64-w64-mingw32; 2025-12-02 05:35:52 UTC; windows
Archs: x64
