DESCRIPTION

Package: QurvE
Title: Robust and User-Friendly Analysis of Growth and Fluorescence Curves
Version: 1.1.1
Authors@R: c(
    person("Nicolas T.", "Wirth", , "mail.nicowirth@gmail.com", role = c("aut", "cre", "cph"),
           comment = c(ORCID = "0000-0003-0799-1321")),
    person("Jonathan", "Funk", , "funk.jonathan21@gmail.com", role = "aut",
           comment = c(contribution = "Co-developer of shiny app.")),
    person("Matthias", "Kahm", role = "ctb",
           comment = c(contribution = "Author of 'grofit' package, whose general data structure was adopted for QurvE.")),
    person("Maik", "Kschischo", role = "ctb",
           comment = c(contribution = "Author of 'grofit' package, whose general data structure was adopted for QurvE.")),
    person("Thomas", "Petzoldt", , "thomas.petzoldt@tu-dresden.de", role = "ctb",
           comment = c(ORCID = "0000-0002-4951-6468", contribution = "Creator of the package 'growthrates', whose function for calculating linear regressions served as a template in QurvE.")),
    person("Andrew", "Stein", , "andy.stein@gmail.com", role = "ctb",
           comment = c(contribution = "Creator of 'xgxr' package from which QurvE adopted code to plot axis ticks on log10 scale.")),
    person("Michael W.", "Kearney", , "kearneymw@missouri.edu", role = "ctb",
           comment = c(contribution = "Creator of 'tfse' package from which QurvE adopted the match_arg function.")),
    person("Santiago I.", "Hurtado", , "santih@carina.fcaglp.unlp.edu.ar", role = "ctb",
           comment = c(contribution = "Creator of 'RobustLinearReg' package from which QurvE adopted the Theil Sehn Regression method.")),
    person("Mark", "Heckmann", role = "ctb",
           comment = c(contribution = "Creator of the 'zipFastener' function; source: https://ryouready.wordpress.com/2009/03/27/r-zip-fastener-for-two-data-frames-combining-rows-or-columns-of-two-dataframes-in-an-alternating-manner/")),
    person("Nicholas", "Hamilton", role = "ctb",
           comment = c(contribution = "Creator of the 'colFmt' function.")),
    person("Evan", "Friedland", role = "ctb",
           comment = c(contribution = "Creator of the 'inflect' function.")),
    person("Heather", "Turner", role = "ctb",
           comment = c(contribution = "Creator of the 'base_breaks' function.")),
    person("Georgi N.", "Boshnakov", , "georgi.boshnakov@manchester.ac.uk", role = "ctb",
           comment = c(contribution = "Creator of 'gbRd' package from which functions are used to display function help pages within the shiny app."))
  )
Description: High-throughput analysis of growth curves and fluorescence
    data using three methods: linear regression, growth model fitting, and
    smooth spline fit. Analysis of dose-response relationships via
    smoothing splines or dose-response models. Complete data analysis
    workflows can be executed in a single step via user-friendly wrapper
    functions. The results of these workflows are summarized in detailed
    reports as well as intuitively navigable 'R' data containers. A 'shiny'
    application provides access to all features without
    requiring any programming knowledge. The package is described in further
    detail in Wirth et al. (2023) <doi:10.1038/s41596-023-00850-7>.
License: GPL (>= 3)
URL: https://github.com/NicWir/QurvE,
    https://nicwir.github.io/QurvE/
BugReports: https://github.com/NicWir/QurvE/issues
Depends:
    dplyr,
    methods,
    R (>= 4.0),
    stringr,
    tidyr
Imports: 
    doParallel,
    drc,
    DT,
    foreach,
    ggh4x,
    ggnewscale,
    ggplot2,
    ggpubr,
    kableExtra,
    knitr,
    labeling,
    magrittr,
    minpack.lm,
    plyr,
    purrr,
    RColorBrewer,
    readxl,
    rmarkdown,
    scales,
    shiny,
    stats,
    utils
Suggests:
    bookdown,
    Cairo,
    htmltools,
    plotrix,
    prettydoc,
    rlang,
    shinyBS,
    shinycssloaders,
    shinyFiles,
    shinyjs,
    shinysurveys,
    shinythemes,
    testthat (>= 3.0.0),
    tibble,
    tinytex
VignetteBuilder: 
    knitr
Encoding: UTF-8
NeedsCompilation: yes
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.3
Collate: 
    'QurvE-package.R'
    'control_functions.R'
    'data_parsers.R'
    'dose-response-analysis.R'
    'fluorescence_plots.R'
    'fluorescence_summaries.R'
    'fluorescence_workflows.R'
    'group_tables.R'
    'growth_plots.R'
    'growth_summaries.R'
    'growth_workflows.R'
    'linear_fits.R'
    'nonparametric_fits.R'
    'parametric_fits.R'
    'utils.R'
    'report_functions.R'
    'shiny_app_functions.R'