Package: superspreading
Title: Understand Individual-Level Variation in Infectious Disease
        Transmission
Version: 0.3.0.9000
Authors@R: c(
    person("Joshua W.", "Lambert", , "joshua.lambert@lshtm.ac.uk", role = c("aut", "cre", "cph"),
           comment = c(ORCID = "0000-0001-5218-3046")),
    person("Adam", "Kucharski", , "adam.kucharski@lshtm.ac.uk", role = c("aut", "cph"),
           comment = c(ORCID = "0000-0001-8814-9421")),
    person("Dillon C.", "Adam", , "dcadam@hku.hk", role = "aut",
           comment = c(ORCID = "0000-0002-7485-9905")),
    person("Sebastian", "Funk", , "sebastian.funk@lshtm.ac.uk", role = c("ctb", "cph"),
           comment = c(ORCID = "0000-0002-2842-3406", ".chain_sim uses code from bpmodels::chain_sim")),
    person("Pratik", "Gupte", , "pratik.gupte@lshtm.ac.uk", role = "rev",
           comment = c(ORCID = "0000-0001-5294-7819")),
    person("Hugo", "Gruson", , "hugo@data.org", role = "rev",
           comment = c(ORCID = "0000-0002-4094-1476")),
    person("James M.", "Azam", , "james.azam@lshtm.ac.uk", role = c("rev", "ctb"),
           comment = c(ORCID = "0000-0001-5782-7330")),
    person("Chris", "Hartgerink", , "chris@data.org", role = "rev",
           comment = c(ORCID = "0000-0003-1050-6809"))
  )
Description: Estimate and understand individual-level variation in
        transmission. Implements density and cumulative compound
        Poisson discrete distribution functions ('Kremer et al.' (2021)
        <doi:10.1038/s41598-021-93578-x>), as well as functions to
        calculate infectious disease outbreak statistics given
        epidemiological parameters on individual-level transmission;
        including the probability of an outbreak becoming an
        epidemic/extinct ('Kucharski et al.' (2020)
        <doi:10.1016/S1473-3099(20)30144-4>), or the cluster size
        statistics, e.g. what proportion of cases cause X\% of
        transmission ('Lloyd-Smith et al.' (2005)
        <doi:10.1038/nature04153>).
License: MIT + file LICENSE
URL: https://github.com/epiverse-trace/superspreading,
        https://epiverse-trace.github.io/superspreading/
BugReports: https://github.com/epiverse-trace/superspreading/issues
Imports: checkmate, rlang, stats
Suggests: dplyr, epiparameter (>= 0.4.0), fitdistrplus, ggplot2,
        ggtext, knitr, purrr, rmarkdown, scales, spelling, testthat (>=
        3.0.0)
VignetteBuilder: knitr
Config/Needs/website: epiverse-trace/epiversetheme
Config/testthat/edition: 3
Encoding: UTF-8
Language: en-GB
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
Repository: https://epiverse-connect.r-universe.dev
Date/Publication: 2025-01-28 17:46:47 UTC
RemoteUrl: https://github.com/epiverse-trace/superspreading
RemoteRef: HEAD
RemoteSha: 7f2b20ec201b6d7fc3eb63f882d197ea6d8d8d4e
NeedsCompilation: no
Packaged: 2026-10-16 07:47:38 UTC; root
Author: Joshua W. Lambert [aut, cre, cph] (ORCID:
    <https://orcid.org/0000-0001-5218-3046>),
  Adam Kucharski [aut, cph] (ORCID:
    <https://orcid.org/0000-0001-8814-9421>),
  Dillon C. Adam [aut] (ORCID: <https://orcid.org/0000-0002-7485-9905>),
  Sebastian Funk [ctb, cph] (ORCID:
    <https://orcid.org/0000-0002-2842-3406>, .chain_sim uses code from
    bpmodels::chain_sim),
  Pratik Gupte [rev] (ORCID: <https://orcid.org/0000-0001-5294-7819>),
  Hugo Gruson [rev] (ORCID: <https://orcid.org/0000-0002-4094-1476>),
  James M. Azam [rev, ctb] (ORCID:
    <https://orcid.org/0000-0001-5782-7330>),
  Chris Hartgerink [rev] (ORCID: <https://orcid.org/0000-0003-1050-6809>)
Maintainer: Joshua W. Lambert <joshua.lambert@lshtm.ac.uk>