{ "_id": "6a169412acfb0bcc41d79b43", "Package": "QurvE", "Title": "Robust and User-Friendly Analysis of Growth and Fluorescence\nCurves", "Version": "1.1.2", "Authors@R": "c(\nperson(\"Nicolas T.\", \"Wirth\", , \"mail.nicowirth@gmail.com\", role = c(\"aut\", \"cre\", \"cph\"),\ncomment = c(ORCID = \"0000-0003-0799-1321\")),\nperson(\"Jonathan\", \"Funk\", , \"funk.jonathan21@gmail.com\", role = \"aut\",\ncomment = c(contribution = \"Co-developer of shiny app.\")),\nperson(\"Matthias\", \"Kahm\", role = \"ctb\",\ncomment = c(contribution = \"Author of 'grofit' package, whose general data structure was adopted for QurvE.\")),\nperson(\"Maik\", \"Kschischo\", role = \"ctb\",\ncomment = c(contribution = \"Author of 'grofit' package, whose general data structure was adopted for QurvE.\")),\nperson(\"Thomas\", \"Petzoldt\", , \"thomas.petzoldt@tu-dresden.de\", role = \"ctb\",\ncomment = c(ORCID = \"0000-0002-4951-6468\", contribution = \"Creator of the package 'growthrates', whose function for calculating linear regressions served as a template in QurvE.\")),\nperson(\"Andrew\", \"Stein\", , \"andy.stein@gmail.com\", role = \"ctb\",\ncomment = c(contribution = \"Creator of 'xgxr' package from which QurvE adopted code to plot axis ticks on log10 scale.\")),\nperson(\"Michael W.\", \"Kearney\", , \"kearneymw@missouri.edu\", role = \"ctb\",\ncomment = c(contribution = \"Creator of 'tfse' package from which QurvE adopted the match_arg function.\")),\nperson(\"Santiago I.\", \"Hurtado\", , \"santih@carina.fcaglp.unlp.edu.ar\", role = \"ctb\",\ncomment = c(contribution = \"Creator of 'RobustLinearReg' package from which QurvE adopted the Theil Sehn Regression method.\")),\nperson(\"Mark\", \"Heckmann\", role = \"ctb\",\ncomment = 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/\")),\nperson(\"Nicholas\", \"Hamilton\", role = \"ctb\",\ncomment = c(contribution = \"Creator of the 'colFmt' function.\")),\nperson(\"Evan\", \"Friedland\", role = \"ctb\",\ncomment = c(contribution = \"Creator of the 'inflect' function.\")),\nperson(\"Heather\", \"Turner\", role = \"ctb\",\ncomment = c(contribution = \"Creator of the 'base_breaks' function.\")),\nperson(\"Georgi N.\", \"Boshnakov\", , \"georgi.boshnakov@manchester.ac.uk\", role = \"ctb\",\ncomment = c(contribution = \"Creator of 'gbRd' package from which functions are used to display function help pages within the shiny app.\"))\n)", "Description": "High-throughput analysis of growth curves and fluorescence\ndata using three methods: linear regression, growth model\nfitting, and smooth spline fit. Analysis of dose-response\nrelationships via smoothing splines or dose-response models.\nComplete data analysis workflows can be executed in a single\nstep via user-friendly wrapper functions. The results of these\nworkflows are summarized in detailed reports as well as\nintuitively navigable 'R' data containers. A 'shiny'\napplication provides access to all features without requiring\nany programming knowledge. The package is described in further\ndetail in Wirth et al. (2023) .", "License": "GPL (>= 3)", "URL": "https://github.com/NicWir/QurvE, https://nicwir.github.io/QurvE/", "BugReports": "https://github.com/NicWir/QurvE/issues", "VignetteBuilder": "knitr", "Encoding": "UTF-8", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.3.3", "Collate": "'QurvE-package.R' 'control_functions.R' 'data_parsers.R'\n'dose-response-analysis.R' 'fluorescence_plots.R'\n'fluorescence_summaries.R' 'fluorescence_workflows.R'\n'group_tables.R' 'utils.R' 'growth_plots.R'\n'growth_summaries.R' 'growth_workflows.R' 'linear_fits.R'\n'nonparametric_fits.R' 'parametric_fits.R' 'report_functions.R'\n'shiny_app_functions.R'", "Config/pak/sysreqs": "cmake libfontconfig1-dev libfreetype6-dev\nlibfribidi-dev make libharfbuzz-dev libicu-dev libpng-dev\nlibuv1-dev libxml2-dev zlib1g-dev", "Repository": "https://nicwir.r-universe.dev", "Date/Publication": "2026-02-26 10:41:44 UTC", "RemoteUrl": "https://github.com/nicwir/qurve", "RemoteRef": "HEAD", "RemoteSha": "e5505bce8ab7ff0e6cf5627fe72c4040747c900f", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-27 06:44:02 UTC", "User": "root" }, "Author": "Nicolas T. Wirth [aut, cre, cph] (ORCID:\n),\nJonathan Funk [aut] (contribution: Co-developer of shiny app.),\nMatthias Kahm [ctb] (contribution: Author of 'grofit' package, whose\ngeneral data structure was adopted for QurvE.),\nMaik Kschischo [ctb] (contribution: Author of 'grofit' package, whose\ngeneral data structure was adopted for QurvE.),\nThomas Petzoldt [ctb] (ORCID: ,\ncontribution: Creator of the package 'growthrates', whose function\nfor calculating linear regressions served as a template in QurvE.),\nAndrew Stein [ctb] (contribution: Creator of 'xgxr' package from which\nQurvE adopted code to plot axis ticks on log10 scale.),\nMichael W. Kearney [ctb] (contribution: Creator of 'tfse' package from\nwhich QurvE adopted the match_arg function.),\nSantiago I. Hurtado [ctb] (contribution: Creator of 'RobustLinearReg'\npackage from which QurvE adopted the Theil Sehn Regression method.),\nMark Heckmann [ctb] (contribution: Creator of the 'zipFastener'\nfunction; source:\nhttps://ryouready.wordpress.com/2009/03/27/r-zip-fastener-for-two-data-frames-combining-rows-or-columns-of-two-dataframes-in-an-alternating-manner/),\nNicholas Hamilton [ctb] (contribution: Creator of the 'colFmt'\nfunction.),\nEvan Friedland [ctb] (contribution: Creator of the 'inflect' function.),\nHeather Turner [ctb] (contribution: Creator of the 'base_breaks'\nfunction.),\nGeorgi N. Boshnakov [ctb] (contribution: Creator of 'gbRd' package from\nwhich functions are used to display function help pages within the\nshiny app.)", "Maintainer": "Nicolas T. 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"growth fitting functions" ], "topics": [ "growth.gcFitModel" ] }, { "page": "growth.gcFitSpline", "title": "Perform a smooth spline fit on growth data", "concept": [ "growth fitting functions" ], "topics": [ "growth.gcFitSpline" ] }, { "page": "growth.report", "title": "Create a PDF and HTML report with results from a growth curve analysis workflow", "concept": [ "reports" ], "topics": [ "growth.report" ] }, { "page": "growth.workflow", "title": "Run a complete growth curve analysis and dose-reponse analysis workflow.", "concept": [ "dose-response analysis functions", "growth fitting functions", "workflows" ], "topics": [ "growth.workflow" ] }, { "page": "inflect", "title": "Find indices of maxima an minima in a data series", "topics": [ "inflect" ] }, { "page": "lm_window", "title": "Helper functions for handling linear fits.", "topics": [ "lm_parms", "lm_window" ] }, { "page": "low.integrate", "title": "Function to estimate the area under a curve given as x and y(x) values", 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Plot the results of a linear regression on ln-transformed data", "topics": [ "plot.gcFitLinear" ] }, { "page": "plot.gcFitModel", "title": "Generic plot function for 'gcFitModel' objects.", "topics": [ "plot.gcFitModel" ] }, { "page": "plot.gcFitSpline", "title": "Generic plot function for 'gcFitSpline' objects.", "topics": [ "plot.gcFitSpline" ] }, { "page": "plot.grid", "title": "Plot a matrix of growth curve panels", "topics": [ "plot.grid" ] }, { "page": "plot.grodata", "title": "Generic plot function for 'grodata' objects. Plots raw growth, fluorescence, or normalized fluorescence data of multiple samples or conditions.", "topics": [ "plot.grodata" ] }, { "page": "plot.grofit", "title": "Generic plot function for 'grofit' objects. Combine different groups of samples into a single plot", "topics": [ "plot.grofit" ] }, { "page": "plot.parameter", "title": "Compare growth parameters between samples or conditions", "topics": [ "plot.parameter" ] }, { "page": "rdm.data", "title": "The function calls the 'baranyi' function to generate curves between time zero and 't' and adds some random noise to the x- and y-axes. The three growth parameters given as input values will be slightly changed to produce different growth curves. The resulting datasets can be used to test the 'growth.workflow' function.", "topics": [ "rdm.data" ] }, { "page": "read_data", "title": "Read growth and fluorescence data in table format", "topics": [ "read_data" ] }, { "page": "read_file", "title": "Call the appropriate function required to read a table file and return the table as a dataframe object.", "topics": [ "read_file" ] }, { "page": "run_app", "title": "Run Shiny QurvE App", "topics": [ "run_app" ] }, { "page": "single_hue_palettes", "title": "Single hue palettes for ggplot2", "topics": [ "single_hue_palettes" ] }, { "page": "summary.drBootSpline", "title": "Generic summary function for drBootSpline objects", "topics": [ "summary.drBootSpline" ] }, { "page": "summary.drFit", "title": "Generic summary function for drFit objects", "topics": [ "summary.drFit" ] }, { "page": "summary.drFitfl", "title": "Generic summary function for drFitfl objects", "topics": [ "summary.drFitfl" ] }, { "page": "summary.drFitFLModel", "title": "Generic summary function for drFitFLModel objects", "topics": [ "summary.drFitFLModel" ] }, { "page": "summary.drFitModel", "title": "Generic summary function for drFitModel objects", "topics": [ "summary.drFitModel" ] }, { "page": "summary.drFitSpline", "title": "Generic summary function for drFitSpline objects", "topics": [ "summary.drFitSpline" ] }, { "page": "summary.flBootSpline", "title": "Generic summary function for flBootSpline objects", "topics": [ "summary.flBootSpline" ] }, { "page": "summary.flFit", "title": "Generic summary function for flFit objects", "topics": [ "summary.flFit" ] }, { "page": "summary.flFitLinear", "title": "Generic summary function for flFitLinear objects", "topics": [ "summary.flFitLinear" ] }, { "page": "summary.flFitSpline", "title": "Generic summary function for flFitSpline objects", "topics": [ "summary.flFitSpline" ] }, { "page": "summary.gcBootSpline", "title": "Generic summary function for gcBootSpline objects", "topics": [ 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