Package: beer
Type: Package
Title: Bayesian Enrichment Estimation in R
Version: 1.15.1
Authors@R: c(person("Athena", "Chen", email = "achen70@jhu.edu", 
    role = c("aut", "cre"), comment = c(ORCID = "0000-0001-6900-2264")),
    person("Rob", "Scharpf", email = "rscharpf@jhu.edu", 
    role = c("aut")), 
    person("Ingo", "Ruczinski", email = "ingo@jhu.edu", 
    role = c("aut")))
Description: BEER implements a Bayesian model for analyzing 
    phage-immunoprecipitation sequencing (PhIP-seq) data. Given a PhIPData 
    object, BEER returns posterior probabilities of enriched antibody responses, 
    point estimates for the relative fold-change in comparison to negative
    control samples, and more. Additionally, BEER provides a convenient 
    implementation for using edgeR to identify enriched antibody responses.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: false
Depends: 
    R (>= 4.2.0),
    PhIPData (>= 1.1.1), 
    rjags
Imports:
    cli,
    edgeR,
    BiocParallel,
    methods,
    progressr,
    stats,
    SummarizedExperiment,
    utils
Suggests: 
    testthat (>= 3.0.0),
    BiocStyle,
    covr,
    codetools,
    knitr,
    rmarkdown,
    dplyr,
    ggplot2,
    spelling
SystemRequirements:
    JAGS (4.3.0)
biocViews: Software, StatisticalMethod, Bayesian, Sequencing, Coverage
URL: https://github.com/athchen/beer/
BugReports: https://github.com/athchen/beer/issues
Config/testthat/edition: 3
VignetteBuilder: knitr
RoxygenNote: 7.3.3
Language: en-US
git_url: https://git.bioconductor.org/packages/beer
git_branch: devel
git_last_commit: cbc6d3d
git_last_commit_date: 2025-11-04
Repository: Bioconductor 3.23
