Type: Package
Package: coiaf
Title: Complexity of Infection Estimation with Allele Frequencies
Version: 0.1.2
Authors@R: 
    c(person(given = "Aris",
             family = "Paschalidis",
             role = c("aut", "cre"),
             email = "aris_paschalidis@brown.edu",
             comment = c(ORCID = "0000-0003-2247-1885")),
      person(given = "OJ",
             family = "Watson",
             role = "aut",
             email = "oj.watson@hotmail.co.uk",
             comment = c(ORCID = "0000-0003-2374-0741")))
Maintainer: Aris Paschalidis <aris_paschalidis@brown.edu>
Description: Provides a direct method for estimating complexity of
        infection using easily calculated measures from sequence read
        depth data.
License: MIT + file LICENSE
URL: https://bailey-lab.github.io/coiaf/,
        https://github.com/bailey-lab/coiaf
BugReports: https://github.com/bailey-lab/coiaf/issues
Depends: R (>= 3.5.0)
Imports: boot, broom, cli, dplyr, ggplot2, glue, Hmisc, lifecycle,
        magrittr, mathjaxr, purrr, rlang (>= 0.4.11), stringr, tibble,
        tidyr, utils
Suggests: bench, here, knitr, patchwork, pbapply, rmarkdown, roxygen2,
        spelling, testthat (>= 3.0.0), vdiffr, withr
VignetteBuilder: knitr
RdMacros: mathjaxr
Config/testthat/edition: 3
Encoding: UTF-8
Language: en-US
LazyData: TRUE
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.2
Config/pak/sysreqs: cmake make libicu-dev libuv1-dev
Repository: https://plasmogenepi.r-universe.dev
Date/Publication: 2023-04-13 20:06:57 UTC
RemoteUrl: https://github.com/bailey-lab/coiaf
RemoteRef: HEAD
RemoteSha: 3df5509ceb4dd095ff5910a9d8a18a5e3551e149
NeedsCompilation: no
Packaged: 2026-06-16 09:14:01 UTC; root
Author: Aris Paschalidis [aut, cre] (ORCID:
    <https://orcid.org/0000-0003-2247-1885>),
  OJ Watson [aut] (ORCID: <https://orcid.org/0000-0003-2374-0741>)