Package: growkar
Title: SummarizedExperiment Infrastructure for Microbial Growth
        Phenotyping
Version: 0.99.4
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 the suggested
        graphics package is installed.
License: MIT + file LICENSE
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
Depends: R (>= 4.5.0)
Imports: methods, BiocBaseUtils, grDevices, S4Vectors,
        SummarizedExperiment, tidySummarizedExperiment, dplyr, purrr,
        rlang, stats, tibble, tidyr, utils
Suggests: ggplot2, 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
Config/pak/sysreqs: cmake make libicu-dev libuv1-dev libssl-dev
        zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-09-07 01:46:56 UTC
RemoteUrl: https://github.com/bioc/growkar
RemoteRef: HEAD
RemoteSha: 6c1fa596975dd272f5d593c6c235f8fc6ded4348
NeedsCompilation: no
Packaged: 2026-10-07 13:22:00 UTC; root
Author: Pooja Sethiya [aut, cre] (ORCID:
    <https://orcid.org/0000-0001-6584-3912>)
Maintainer: Pooja Sethiya <poojasethiya24@gmail.com>