Package: abseqR
Type: Package
Title: Reporting and data analysis functionalities for Rep-Seq datasets
        of antibody libraries
Version: 1.29.0
Authors@R: c(
    person("JiaHong", "Fong", email = "jiahfong@gmail.com", role = c("cre", "aut")),
    person("Monther", "Alhamdoosh", email = "m.hamdoosh@gmail.com", role = "aut"))
Description: AbSeq is a comprehensive bioinformatic pipeline for the
        analysis of sequencing datasets generated from antibody
        libraries and abseqR is one of its packages. abseqR empowers
        the users of abseqPy (https://github.com/malhamdoosh/abseqPy)
        with plotting and reporting capabilities and allows them to
        generate interactive HTML reports for the convenience of
        viewing and sharing with other researchers. Additionally,
        abseqR extends abseqPy to compare multiple repertoire analyses
        and perform further downstream analysis on its output.
License: GPL-3 | file LICENSE
Encoding: UTF-8
Depends: R (>= 3.5.0)
Imports: ggplot2, RColorBrewer, circlize, reshape2, VennDiagram, plyr,
        flexdashboard, BiocParallel (>= 1.1.25), png, grid, gridExtra,
        rmarkdown, knitr, vegan, ggcorrplot, ggdendro, plotly,
        BiocStyle, stringr, utils, methods, grDevices, stats, tools,
        graphics
VignetteBuilder: knitr
RoxygenNote: 6.1.0
Collate: 'accessors-AbSeq.R' 'AbSeqCRep.R' 'util.R' 'distributions.R'
        'upstreamAnalysis.R' 'productivityAnalysis.R'
        'primerAnalysis.R' 'diversityAnalysis.R' 'annotationAnalysis.R'
        'abundanceAnalysis.R' 'plotter.R' 'AbSeqRep.R' 'abseqReport.R'
        'statistics.R' 'pairwise.R'
SystemRequirements: pandoc (>= 1.19.2.1)
URL: https://github.com/malhamdoosh/abseqR
BugReports: https://github.com/malhamdoosh/abseqR/issues
biocViews: Sequencing, Visualization, ReportWriting, QualityControl,
        MultipleComparison
Suggests: testthat
Config/pak/sysreqs: make libicu-dev libpng-dev libssl-dev zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2025-10-29 14:48:45 UTC
RemoteUrl: https://github.com/bioc/abseqR
RemoteRef: HEAD
RemoteSha: 89ae70bc56c33a8fbfb946a351b9ed3b07e7496c
NeedsCompilation: no
Packaged: 2026-02-22 08:55:04 UTC; root
Author: JiaHong Fong [cre, aut],
  Monther Alhamdoosh [aut]
Maintainer: JiaHong Fong <jiahfong@gmail.com>
Built: R 4.6.0; ; 2026-02-22 08:56:42 UTC; windows
