Package: baker
Type: Package
Title: "Nested Partially Latent Class Models"
Version: 1.0.4
Date: 2025-12-11
Authors@R: c(
     person("Zhenke", "Wu", email="zhenkewu@gmail.com",role=c("cre","aut","cph"),
     comment = c(ORCID = "0000-0001-7582-669X")),
     person("Scott", "Zeger", email="sz@jhu.edu",role="aut",
     comment = c(ORCID = "0000-0001-8907-1603")),
     person("John", "Muschelli", email="muschellij2@gmail.com", role="ctb", 
     comment = c(ORCID = "0000-0001-6469-1750")),
     person("Irena", "Chen", email="irena@umich.edu", role="ctb",
     comment = c(ORCID = "0000-0002-9366-8506"))
     )
Description: Provides functions to specify, fit and visualize
    nested partially-latent class models (
    Wu, Deloria-Knoll, Hammitt, and Zeger (2016) <doi:10.1111/rssc.12101>; 
    Wu, Deloria-Knoll, and Zeger (2017) <doi:10.1093/biostatistics/kxw037>;
    Wu and Chen (2021) <doi:10.1002/sim.8804>) for 
    inference of population disease etiology and individual diagnosis. In the motivating
    Pneumonia Etiology Research for Child Health (PERCH) study, because both quantities
    of interest sum to one hundred percent, the PERCH scientists frequently refer to
    them as population etiology pie and individual etiology pie, hence the name of the package.
Depends: R(>= 4.3.0)
Imports: rjags(>= 4-6), R2jags(>= 0.5), lubridate(>= 1.3), binom(>=
        1.1), coda(>= 0.16), robCompositions(>= 2.0.3), ggplot2(>=
        1.0), ggpubr(>= 0.4.0), gridExtra(>= 2.0), reshape2(>= 1.4),
        mgcv(>= 1.8-6), mvbutils(>= 2.7.4.1), shinyFiles(>= 0.6),
        shinydashboard(>= 0.5.1), stats, utils, abind
License: MIT + file LICENSE
Language: en-US
SystemRequirements: JAGS (>= 4.3.2) (http://mcmc-jags.sourceforge.net)
Suggests: spelling, knitr, testthat, rmarkdown, covr, knitcitations, sf
VignetteBuilder: knitr
RoxygenNote: 7.3.3
Encoding: UTF-8
URL: https://github.com/zhenkewu/baker, https://zhenkewu.com/baker/
BugReports: https://github.com/zhenkewu/baker/issues
NeedsCompilation: no
Packaged: 2025-12-11 07:23:25 UTC; zhenkewu
Author: Zhenke Wu [cre, aut, cph] (ORCID:
    <https://orcid.org/0000-0001-7582-669X>),
  Scott Zeger [aut] (ORCID: <https://orcid.org/0000-0001-8907-1603>),
  John Muschelli [ctb] (ORCID: <https://orcid.org/0000-0001-6469-1750>),
  Irena Chen [ctb] (ORCID: <https://orcid.org/0000-0002-9366-8506>)
Maintainer: Zhenke Wu <zhenkewu@gmail.com>
Repository: CRAN
Date/Publication: 2025-12-11 23:20:26 UTC
Built: R 4.6.0; ; 2026-04-25 14:10:46 UTC; unix
