# Flexible, Interactive 'shiny' Modules for Almost Any Plot

## Documentation for package ‘VizModules’ version 0.4.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

A B C D E F G H I L M O P R S T U V

## -- A --

add_ablines | Build diagonal (abline) line shapes for a plotly figure
add_hlines | Build horizontal line shapes for a plotly figure
add_plot_config | Create default Plotly configuration
add_reference_lines | Add reference lines to a plotly figure from Shiny inputs
add_vlines | Build vertical line shapes for a plotly figure
adjusted_axis_label | Build an adjustment-aware axis label
adjust_column_values | Adjust numeric column values in a data frame using mathematical transformations
apply_axis_title_to_annotations | Apply axis title font styling to shared facet axis annotations
apply_facet_subplot_spacing | Apply custom subplot spacing to a faceted ggplotly figure
apply_legend_styling | Apply uniform legend font styling to a plotly figure
apply_plotly_newshape | Apply Plotly newshape styling from uniform Plotly inputs
apply_render_margins | Apply standard render-time margin layout to a plotly figure
apply_stat_annotations | Apply statistical annotation shapes and annotations to a plotly figure
apply_subplot_axis_styling | Apply axis styling to all subplot axes in a plotly figure
apply_title_layout | Apply plot title styling to a plotly figure
axis_titles_as_annotations | Convert native cartesian axis titles to draggable annotations

## -- B --

build_facet_annotations | Build facet subplot annotations
build_facet_panel_borders | Build paper-anchored panel border shapes for a faceted plotly figure
build_model_row_spec | Build a dynamic row_spec from registered backends

## -- C --

clean_facet_dim | Clean and validate facet dimension value for lineplot module
collect_source_data | Collect plot and source data for download
ComplexHeatmap_HeatmapApp | Create an example Modular ComplexHeatmap Shiny Application
ComplexHeatmap_HeatmapInfoOutputUI | Click/brush info output UI component for the ComplexHeatmap module
ComplexHeatmap_HeatmapInputsUI | Input UI components for the ComplexHeatmap module
ComplexHeatmap_HeatmapMainOutputUI | Main heatmap output UI component for the ComplexHeatmap module
ComplexHeatmap_HeatmapOutputUI | Output UI components for the ComplexHeatmap module
ComplexHeatmap_HeatmapServer | Server logic for the ComplexHeatmap module
ComplexHeatmap_HeatmapSubOutputUI | Sub-heatmap output UI component for the ComplexHeatmap module
compute_pairwise_stats | Compute pairwise statistical tests between groups
createModuleApp | Create an Example Module App from Any Module Trio
create_axis_styles | Create Plotly axis style list
create_ggplot_axis_style | Create ggplot axis styling theme arguments
create_source_download_handler | Create download handler for plot with source data
create_stat_annotations | Create plotly shapes and annotations for statistical test results

## -- D --

dataFilterServer | Server logic for the dataFilter module
dataFilterUI | UI component for the dataFilter module
default_palettes | Color palette options for palettePicker
dittoViz_freqPlotApp | Create an example Modular freqPlot Shiny Application
dittoViz_freqPlotInputsUI | Input UI components for the freqPlot module
dittoViz_freqPlotOutputUI | Output UI components for the freqPlot module
dittoViz_freqPlotServer | Server logic for freqPlot module
dittoViz_scatterPlotApp | Create an example Modular scatterPlot Shiny Application
dittoViz_scatterPlotInputsUI | Input UI components for the scatterPlot module
dittoViz_scatterPlotOutputUI | Output UI components for the scatterPlot module
dittoViz_scatterPlotServer | Server logic for scatterPlot module
dittoViz_yPlotApp | Create an example Modular yPlot Shiny Application
dittoViz_yPlotInputsUI | Input UI components for the yPlot module
dittoViz_yPlotOutputUI | Output UI components for the yPlot module
dittoViz_yPlotServer | Server logic for yPlot module
dumbbellPlot | Create an Interactive Dumbbell Plot with plotly
dumbbellPlotApp | Create a Shiny App for Dumbbell Plots
dumbbellPlotInputsUI | Input UI components for the dumbbellPlot module
dumbbellPlotOutputUI | Output UI components for the dumbbellPlot module
dumbbellPlotServer | Server logic for dumbbellPlot module

## -- E --

empty_plot | Create an empty ggplot2 plot or plotly plot with input text
example_bar | Bar dataset for bar and split bar plot examples
example_composition | Example single-cell-style composition data for the freqPlot module
example_demographics | Example demographics dataset
example_heatmap_column_data | Example sample-metadata table for the ComplexHeatmap module
example_heatmap_matrix | Example gene-expression-style matrix for the ComplexHeatmap module
example_iris | Example grouped iris dataset
example_markers | Example single-cell marker gene dataset for dot plots
example_mtcars | Example mtcars dataset with factors
example_population | Example population dataset A simulated population dataset with 400 rows covering 50 years and 8 age groups. Designed for line, area, and stacked bar plot examples.
example_rnaseq | Example RNA-seq dataset for the RNA-seq showcase app
example_sales | Example sales dataset
example_school_earnings | Example school earnings dataset for dumbbell plots
example_skills | Example multi-player skills dataset for radar plots

## -- F --

figureBuilderApp | Create a VizModules Figure Builder Application
figureBuilderServer | Server logic for the Figure Builder module
figureBuilderUI | UI component for the Figure Builder module
finalize_manual_edits | Render persistent manual plot layout edits across re-renders

## -- G --

generate_pair_strings | Generate comparison pair strings from data columns
get_default | Resolve a default value from a named list
get_documentation | Extract parameter documentation from an R function help page
get_model_backend | Get a registered model backend

## -- H --

hide_input | Hide the grid cells wrapping module inputs

## -- I --

is_pure_type | Check if column inputs contain mixed data types

## -- L --

linePlot | Create an Interactive Line Plot with plotly
linePlotApp | Create an example Modular linePlot Shiny Application
linePlotInputsUI | Input UI components for the linePlot module
linePlotOutputUI | Output UI components for the linePlot module
linePlotServer | Server logic for linePlot module
linetype_to_dash | Convert linetype name to plotly dash style
list_model_backends | List registered model backends

## -- M --

module_tack_ui | Create standard tack UI for module inputs
multiColorPicker | Compact multi-group color picker input
multiDynamicInput | Dynamic multi-row input for repeating groups of inputs

## -- O --

organize_inputs | Organize arbitrary Shiny inputs into a grid layout

## -- P --

parallelCoordinatesPlot | Create an Interactive Parallel Coordinates Plot with plotly
parallelCoordinatesPlotApp | Create an example Modular parallelCoordinatesPlot Shiny Application
parallelCoordinatesPlotInputsUI | Input UI components for the parallelCoordinatesPlot module
parallelCoordinatesPlotOutputUI | Output UI components for the parallelCoordinatesPlot module
parallelCoordinatesPlotServer | Server logic for parallelCoordinatesPlot module
parse_numeric_list | Parse comma-separated numeric string to vector
parse_pair_strings | Parse pair strings from UI into list of length-2 vectors
piePlot | Create a plotly pie chart
piePlotApp | Create an example Modular piePlot Shiny Application
piePlotInputsUI | Input UI components for the piePlot module
piePlotOutputUI | Output UI components for the piePlot module
piePlotServer | Server logic for piePlot module
plotthis_AreaPlotApp | Create an example Modular AreaPlot Shiny Application
plotthis_AreaPlotInputsUI | Input UI components for the AreaPlot module
plotthis_AreaPlotOutputUI | Output UI components for the AreaPlot module
plotthis_AreaPlotServer | Server logic for AreaPlot module
plotthis_BarPlotApp | Create an example Modular BarPlot Shiny Application
plotthis_BarPlotInputsUI | Input UI components for the BarPlot module
plotthis_BarPlotOutputUI | Output UI components for the BarPlot module
plotthis_BarPlotServer | Server logic for BarPlot module
plotthis_BoxPlotApp | Create an example Modular BoxPlot Shiny Application
plotthis_BoxPlotInputsUI | Input UI components for the BoxPlot module
plotthis_BoxPlotOutputUI | Output UI components for the BoxPlot module
plotthis_BoxPlotServer | Server logic for BoxPlot module
plotthis_DensityPlotApp | Create an example Modular DensityPlot Shiny Application
plotthis_DensityPlotInputsUI | Input UI components for the DensityPlot module
plotthis_DensityPlotOutputUI | Output UI components for the DensityPlot module
plotthis_DensityPlotServer | Density Plot Server Module
plotthis_DotPlotApp | Create an example Modular DotPlot Shiny Application
plotthis_DotPlotInputsUI | Input UI components for the DotPlot module
plotthis_DotPlotOutputUI | Output UI components for the DotPlot module
plotthis_DotPlotServer | Server logic for DotPlot module
plotthis_HistogramApp | Create an example Modular Histogram Shiny Application
plotthis_HistogramInputsUI | Input UI components for the Histogram module
plotthis_HistogramOutputUI | Output UI components for the histogramPlot module
plotthis_HistogramServer | Histogram Plot Server Module
plotthis_SplitBarPlotApp | Create an example Modular SplitBarPlot Shiny Application
plotthis_SplitBarPlotInputsUI | Input UI components for the SplitBarPlot module
plotthis_SplitBarPlotOutputUI | Output UI components for the SplitBarPlot module
plotthis_SplitBarPlotServer | Server logic for SplitBarPlot module
plotthis_ViolinPlotApp | Create an example Modular ViolinPlot Shiny Application
plotthis_ViolinPlotInputsUI | Input UI components for the ViolinPlot module
plotthis_ViolinPlotOutputUI | Output UI components for the ViolinPlot module
plotthis_ViolinPlotServer | Server logic for ViolinPlot module

## -- R --

radarPlot | Create a plotly radar chart
radarPlotApp | Create an example Modular radarPlot Shiny Application
radarPlotInputsUI | Input UI components for the radarPlot module
radarPlotOutputUI | Output UI components for the radarPlot module
radarPlotServer | Server logic for radarPlot module
recycle_line_style | Recycle style vector to match line count
register_model_backend | Register a model backend
reset_annotation_inputs | Reset uniform Annotation inputs to defaults
reset_axes_inputs | Reset uniform axes inputs to defaults
reset_axis_title_text | Drop persisted axis-title text edits
reset_legend_inputs | Reset uniform Legend inputs to defaults
reset_lines_inputs | Reset uniform lines inputs to defaults
reset_plotly_inputs | Reset uniform Plotly inputs to defaults
resolve_column_targets | Translate column names or positions into DT column targets
resolve_facet_layout | Resolve number of rows for a faceted subplot grid
resolve_facet_sharing | Resolve facet axis sharing from facet.scales
resolve_palette | Resolve a color palette for plot groups

## -- S --

safe_eval_filter | Safely evaluate a user-provided filter expression against a data frame
safe_resolve_adj_fxn | Safely resolve an adjustment function name to an actual function
setup_auto_update_logic | Set up auto-update/isolate logic for reactive contexts
setup_axis_range | Track the axis limits a plot should draw with
setup_group_colors | Track the group-to-color mapping a plot should draw with
setup_manual_edits | Set up persistent manual plot layout edits across re-renders
setup_reactive_defaults | Resolve reactive 'defaults' entries into a server-side parameter store
show_input | Show the grid cells wrapping module inputs
stat_bracket_y_max | Y-axis top needed to draw statistical annotation brackets in full
string_to_linetypes | Parse and validate linetype string to a vector

## -- T --

toggle_input_cell | Hide or show the grid cell wrapping a module input

## -- U --

uniform_annotation_inputs_ui | Generate uniform Annotation input UI
uniform_axes_inputs_ui | Generate uniform Axes input UI
uniform_legend_inputs_ui | Generate uniform Legend input UI
uniform_lines_inputs_ui | Generate uniform Lines input UI
uniform_plotly_inputs_ui | Generate uniform Plotly input UI
updateMultiColorPicker | Update a multiColorPicker input on the client
updateMultiDynamicInput | Update a multiDynamicInput input on the client
update_viz_select | Update a select input created by viz_select_input
use_vizmodules_skills | Install the bundled VizModules agent skills into a project

## -- V --

validate_expression | Validate a user-provided expression string for safety
viz_select_input | Create a select input that scales to very large choice sets