Package: BinaryReplicates
Title: Dealing with Binary Replicates
Version: 1.0.0
Authors@R: 
    c(person("Pierre", "Pudlo", , "pierre.pudlo@univ-amu.fr", role = c("aut", "cre"),
           comment = c(ORCID = "0000-0003-0995-716X")),
    person("Manuela", "Royez-Carenzi", , "manuela.carenzi@univ-amu.fr", role = c("aut"),
           comment = c(ORCID = "0000-0003-2392-1120")),
    person("Hadrien", "Lorenzo", , "hadrien.lorenzo@univ-amu.fr", role = c("aut"),
           comment = c(ORCID = "0000-0002-0253-8539")))
Description: Statistical methods for analyzing binary replicates, which
        are noisy binary measurements of latent binary states. Provides
        scoring functions (average, median, likelihood-based, and
        Bayesian) to estimate the probability that an individual is in
        the positive state. Includes maximum a posteriori estimation
        via the EM algorithm and full Bayesian inference via Stan.
        Supports classification with inconclusive decisions and
        prevalence estimation.
License: GPL (>= 3)
URL: https://github.com/pierrepudlo/BinaryReplicates
BugReports: https://github.com/pierrepudlo/BinaryReplicates/issues
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.3
Biarch: true
Depends: R (>= 3.5.0)
Imports: methods, Rcpp (>= 0.12.0), RcppParallel (>= 5.0.1), rstan (>=
        2.18.1), rstantools (>= 2.4.0), dplyr (>= 0.8.0), magrittr (>=
        1.5)
LinkingTo: BH (>= 1.66.0), Rcpp (>= 0.12.0), RcppEigen (>= 0.3.3.3.0),
        RcppParallel (>= 5.0.1), rstan (>= 2.18.1), StanHeaders (>=
        2.18.0)
SystemRequirements: GNU make
Suggests: knitr, rmarkdown, tidyverse
VignetteBuilder: knitr
Config/pak/sysreqs: make
Repository: https://pierrepudlo.r-universe.dev
Date/Publication: 2026-02-02 10:35:30 UTC
RemoteUrl: https://github.com/pierrepudlo/binaryreplicates
RemoteRef: HEAD
RemoteSha: 3bc5776cd2f519d59db165e1f8f016b8ab001342
NeedsCompilation: yes
Packaged: 2026-07-02 09:48:34 UTC; root
Author: Pierre Pudlo [aut, cre] (ORCID:
    <https://orcid.org/0000-0003-0995-716X>),
  Manuela Royez-Carenzi [aut] (ORCID:
    <https://orcid.org/0000-0003-2392-1120>),
  Hadrien Lorenzo [aut] (ORCID: <https://orcid.org/0000-0002-0253-8539>)
Maintainer: Pierre Pudlo <pierre.pudlo@univ-amu.fr>