Package: Pv3Rs
Title: Estimate the Cause of Recurrent Vivax Malaria using Genetic Data
Version: 1.0.0
Authors@R: c(
    person("Aimee", "Taylor", email = "aimee.taylor@pasteur.fr", 
    role = c("aut", "cre"), 
    comment = c(ORCID = "0000-0002-2337-8992")),
    person("Yong See", "Foo", role = "aut", 
    comment = c(ORCID = "0000-0003-3010-9106")),
    person("Tymoteusz", "Kwiecinski", role = "com", comment = "compiled included macros.Rd"), 
    person("Duncan", "Murdoch", role = "ctb", comment = "author of included macros.Rd"),
    person("Mans", "Magnusson", role = "ctb", comment = "author of included msg_progress_bar.R"),
    person("Institut Pasteur", role = "cph"),
    person("European Union, Project 101110393", role = "fnd")
  )
Description: Plot malaria parasite genetic data on two or more episodes. 
    Compute per-person posterior probabilities that each
    Plasmodium vivax (Pv) recurrence is a recrudescence, relapse,
    or reinfection (3Rs) using per-person P. vivax genetic data on two or
    more episodes and a statistical model described in 
    Taylor, Foo and White (2022) <doi:10.1101/2022.11.23.22282669>. 
    Plot per-recurrence posterior probabilities. 
License: GPL (>= 3)
URL: https://aimeertaylor.github.io/Pv3Rs/,
        https://github.com/aimeertaylor/Pv3Rs
BugReports: https://github.com/aimeertaylor/Pv3Rs/issues
Depends: R (>= 3.5)
Imports: dplyr, fields, grDevices, igraph, matrixStats, methods,
        multicool, partitions, purrr, RColorBrewer
Suggests: codetools, gtools, knitr, Matrix, plyr, R.rsp, rmarkdown,
        testthat (>= 3.0.0), tictoc, utils
VignetteBuilder: knitr
Config/Needs/website: rmarkdown
Config/testthat/edition: 3
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.3.2
NeedsCompilation: no
Packaged: 2025-11-20 12:57:44 UTC; ataylor
Author: Aimee Taylor [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-2337-8992>),
  Yong See Foo [aut] (ORCID: <https://orcid.org/0000-0003-3010-9106>),
  Tymoteusz Kwiecinski [com] (compiled included macros.Rd),
  Duncan Murdoch [ctb] (author of included macros.Rd),
  Mans Magnusson [ctb] (author of included msg_progress_bar.R),
  Institut Pasteur [cph],
  European Union, Project 101110393 [fnd]
Maintainer: Aimee Taylor <aimee.taylor@pasteur.fr>
Repository: CRAN
Date/Publication: 2025-11-20 13:10:02 UTC
Built: R 4.6.0; ; 2026-04-26 14:37:37 UTC; unix
