Package: beer
Type: Package
Title: Bayesian Enrichment Estimation in R
Version: 1.17.0
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
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
Config/pak/sysreqs: jags libicu-dev libssl-dev zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:57:48 UTC
RemoteUrl: https://github.com/bioc/beer
RemoteRef: HEAD
RemoteSha: 2ad6b135eabab8a38489c561d001a7d0e5f6c14f
NeedsCompilation: no
Packaged: 2026-07-04 22:50:10 UTC; root
Author: Athena Chen [aut, cre] (ORCID: <https://orcid.org/0000-0001-6900-2264>),
  Rob Scharpf [aut],
  Ingo Ruczinski [aut]
Maintainer: Athena Chen <achen70@jhu.edu>