Package: growkar
Title: SummarizedExperiment Infrastructure for Microbial Growth
        Phenotyping
Version: 0.99.2
Authors@R: 
    person("Pooja", "Sethiya", 
           email = "poojasethiya24@gmail.com", 
           role = c("aut", "cre"),
           comment = c(ORCID = "0000-0001-6584-3912"))
Description: growkar provides Bioconductor-native infrastructure for
    high-throughput microbial growth phenotyping from plate-based assays such
    as optical density (OD) measurements. The package is built around
    SummarizedExperiment as its canonical data model, with OD measurements in
    assays, timepoint annotations in rowData, sample annotations in colData,
    and derived phenotypes in metadata. growkar supports data import, quality
    control, normalization, empirical growth-rate estimation,
    exponential-phase detection, and parametric modeling of growth dynamics.
    These workflows enable extraction of biologically meaningful phenotypes
    including lag time, growth rate, doubling time, and carrying capacity,
    and allow growth-derived phenotypes to be integrated with other
    Bioconductor analyses in microbial systems biology and multi-omics
    studies. The data-structure and analysis layers depend only on core
    Bioconductor infrastructure; graphing is optional and provided by
    'plot_*' functions that are enabled when suggested graphics packages are
    installed.
License: MIT + file LICENSE
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
Depends: R (>= 4.6.0)
Imports: methods, S4Vectors, SummarizedExperiment,
        tidySummarizedExperiment, dplyr, purrr, rlang, stats, tibble,
        tidyr, utils
Suggests: ggplot2, RColorBrewer, knitr, remotes, rmarkdown, testthat
        (>= 3.0.0)
VignetteBuilder: knitr
Config/testthat/edition: 3
URL: https://github.com/sethiyap/growkar
BugReports: https://github.com/sethiyap/growkar/issues
biocViews: Software, SystemsBiology, ExperimentalDesign, Visualization,
        Infrastructure, DataImport, QualityControl, Normalization
Config/roxygen2/version: 8.0.0
git_url: https://git.bioconductor.org/packages/growkar
git_branch: devel
git_last_commit: 08e4ee8
git_last_commit_date: 2026-07-28
Repository: Bioconductor 3.24
Date/Publication: 2026-08-31
NeedsCompilation: no
Packaged: 2026-08-31 21:35:01 UTC; biocbuild
Author: Pooja Sethiya [aut, cre] (ORCID:
    <https://orcid.org/0000-0001-6584-3912>)
Maintainer: Pooja Sethiya <poojasethiya24@gmail.com>
Built: R 4.6.1; ; 2026-09-01 07:00:34 UTC; unix
