JSONSchToRd             Get R Documentation from a JSON schema.
addDateOfReportRun      Add date of report running
addFacetPanel           Add facet-panel to single plotly plot.
addLayerToScatterPlot   Helper function to add layer to scatter plot
addReferenceLinesClinDataPlot
                        Add reference (horizontal/vertical/diagonal)
                        lines to a clinical data plot
addSelectBtn            Add selection box(es) to a plotly plot.
addWatermark            Add a watermark to a 'plotly' object.
annotateData            Annotate a dataset.
barplotClinData         Barplot visualization of clinical data.
boxplotClinData         Boxplot interactive plot.
buildBook               Build the book
checkAvailabilityMetadata
                        Check availability of arguments in list
checkChapterParallel    Check if a chapter is run internally in
                        parallel or not.
checkConfigFile         Check a configuration file (in _YAML_ format)
                        based on a requirement file in JSON Schema
                        format.
checkReportTitles       Check report titles
checkTemplatesName      Checks of config files template.
checkValueType          Check if the specified 'valueType' parameter
                        can be passed to the 'branchvalues' of the
                        'plot_ly' treemap/sunburst visualizations.
clinDataReview-common-args
                        Common arguments for the functions of the
                        clinDataReview package
clinDataReview-common-args-report
                        Common parameters for the clinical data
                        reporting function
clinDataReview-common-args-summaryStatsVis
                        Common arguments for the plotting functions
                        summary statistics of the clinDataReview
                        package
clinDataReview-templates
                        Rmarkdown templates for clinical data
collapseHtmlContent     Function to create collapsible HTML content
combineButtonsAndPlot   Combine select box(es) and the plot
convertMdToHtml         Convert the Md file for a specific chapter to
                        html
convertReportToAspx     Convert report format from .html to .aspx
countNLines             Count number of lines in a vector
createClinDataReviewReportSkeleton
                        Create the skeleton of a report
createExampleMetadata   Create an example metadata file
createMainConfigSkeleton
                        Create the config file for the skeleton
createOutputYaml        Create a output YAML file
createPatientProfileVar
                        Create link to patient profile
createRedirectPage      Create a redirect page
createTemplateDoc       Create documentation for clinical data template
                        reports available in the 'template' folder of
                        the package.
errorbarClinData        Interactive plot of confidence interval/error
                        interval of clinical data.
exportSessionInfoToMd   Combine all session informations across all
                        clinical data reports and export them into a
                        dedicated Markdown document
filterData              Filter a dataset based on specified filters.
filterDataSingle        Filter data for a single filter
forceParams             Force the evaluation of the parameters from
                        config file.
formatDataForPlotClinData
                        Format data for interactive plot for clinical
                        data
formatHoverText         Format hover text for use in plotly interactive
                        plots. The labels are wrapped to multiple lines
                        if exceed the width of the plotly hover box,
                        e.g. in case labels for points with same x/y
                        coordinates overlap, and corresponding labels
                        are truncated.
formatPathDateInfoMetadata
                        Format the info on paths from metadata
formatPlotlyClinData    Format interactive plot, with possibility to
                        download patient profiles on a click event.
formatToHierarchicalData
                        Format data to a hierarchical data, in the
                        format as required by the plotly sunburst and
                        treemap.
getAxisLab              Get axis label
getAxisLabs             Set different variables for the x-axis labels
getAxisLimPlot          Get axis limits for a 'ggplot' plot from the
                        input dataset.
getDataReferenceLines   Extract data for the reference lines
getDimGgplot            Get plot dimensions
getExtraDirs            Get extra directory(ies) required for the
                        clinical data review report
getFacetVars            Get facetting variables from facet parameters.
getFctCode              Get function code
getFctTypeReferenceLines
                        Get the names of the 'ggplot' function to use
                        for the reference lines
getHTMLToc              Get HTML toc
getHeightLab            Get height of labels: title, subtitle or
                        caption
getIndexHTMLTitle       Get index of the line containing the HTML title
                        in a vector of HTML strings
getInterimResFile       Get interim res file
getJitterVar            Add jitter to the variable of the plot, based
                        on the different groups of a grouping variable
getJsDepClinDataReview
                        Get Javascript custom scripts required for
                        specific clinical data functionalities.
getMdFromConfig         Get path of the 'HTML' file corresponding to a
                        specific config file.
getMdHeader             Get Markdown header, for creation in Rmarkdown.
getMetadata             Read metadata file
getParFctReferenceLines
                        Get parameter of function used for reference
                        lines
getParamsFromConfig     Get parameters from a config file
getPathHyperlink        Get path ('href') property from hyperlink(s).
getPathTemplate         Get path of template clinical data report
getPlotTableVars        Extract variables displayed in the attached
                        table, for each available plotting function of
                        the clinDataReview package.
getPositionAndMargins   Get margins and positions of specific elements
                        for a clinical data plot
getSizePlot             Get dimensions for a clinical data plot
getTocNumbering         Get TOC numbering
getWatermark            Get a watermark, to be included in a clinical
                        visualization
gitbook_clinDataReview_report
                        Clinical data format for bookdown report.
html_clinDataReview_report
                        Clinical data format for rmarkdown report.
knitPrintClinDataReview
                        Include output from clinical data, or list of
                        such outputs in a Rmarkdown report, with an
                        appropriate title.
knit_print.clinDataReview
                        Print 'clinDataReviewTable' object in a knitted
                        document (e.g. Rmarkdown document).
knit_print.clinDataReviewMetadata
                        Print metadata file in the clinical data report
layoutClinData          Set layout for a clinical data plot.
merge.sessionInfo       Merge multiple session information
moveSkeletonFiles       Move skeleton files from the package to a
                        directory
moveXpt                 Move data sets from clinUtils
plotCountClinData       Interactive plot of 'count' data
postProcessReport       Convert clinical data Markdown files to HTML
print.clinDataReview    Print a 'clinDataReview' object in the console
processData             Process a dataset.
renamePathDateInfoMetadata
                        Rename variable names of metadata info
renderChapter           Render one chapter of a clinical report, based
                        on a configuration file
renderFile              Render a rmarkdown file, possibly in a new R
                        session
render_clinDataReviewReport
                        Render a clinical data review report.
scatterplotClinData     Scatterplot of variables of interest for
                        clinical data visualization.
setFacetLayoutWrap      Set facetting layout for 'wrap' facetting.
setPaletteStaticScatterplotClinData
                        Get standard palette for the
                        'staticScatterplotClinData' function.
splitChapter            Split a chapter based on the 'split_by'
                        parameter.
staticScatterplotClinData
                        Scatterplot of variables of interest for
                        clinical data visualization
sunburstClinData        Sunburst interactive plot.
tableClinData           Create a 'clinical data table', associated to a
                        plot.
timeProfileIntervalPlot
                        Visualize time intervals across
                        subjects/parameters.
transformData           Transform data.
treemapClinData         Treemap interactive plot.
varToFm                 Get formula for a specific variable, to be used
                        in aesthetic specification in 'plot_ly'.
zipClinDataReview       Zip the clinical data report
