R interface to epiviz web components

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Documentation for package ‘epivizrChart’ version 1.28.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

.constructURL	Construct URL for Websocket connection between R and UI
.initialize_chart	Initialize Epiviz Chart based on chart type
.register_all_the_epiviz_things	(taken from epivizr) register epiviz actions
.settings_as_df	(taken from epivizr) print settings in a readable format
append_region	Generic method to add navigation regions
append_region-method	Generic method to add navigation regions
bcode_eset	Example expression data from the Gene Expression barcode project
BlocksTrack	Method to add Blocks Track
BlocksTrack-method	Method to add Blocks Track
cgi_gr	Locations of CpG Islands
chart_default_settings_colors	Get default chart settings and colors
EpivizBlocksTrack	Data container for an Epiviz Blocks Track.
EpivizBlocksTrack-class	Data container for an Epiviz Blocks Track.
EpivizChart	Data container for an Epiviz chart component.
epivizChart	Initialize an 'EpivizChart' object to visualize in viewer or knit to HTML.
EpivizChart-class	Data container for an Epiviz chart component.
EpivizChartDataMgr	Class providing data manager for epiviz charts.
EpivizChartDataMgr-class	Class providing data manager for epiviz charts.
EpivizDataSource	Data container for an Epiviz Data Source component.
EpivizDataSource-class	Data container for an Epiviz Data Source component.
epivizEnv	Initialize an 'EpivizEnvironment' object.
EpivizEnvironment	Data container for an Epiviz environment component.
EpivizEnvironment-class	Data container for an Epiviz environment component.
EpivizGenesTrack	Data container for an Epiviz Genes Track.
EpivizGenesTrack-class	Data container for an Epiviz Genes Track.
EpivizHeatmapPlot	Data container for an Epiviz Heatmap Plot.
EpivizHeatmapPlot-class	Data container for an Epiviz Heatmap Plot.
EpivizIGVTrack	Data container for an Epiviz Genes Track.
EpivizIGVTrack-class	Data container for an Epiviz Genes Track.
EpivizLinePlot	Data container for an Epiviz Line Plot.
EpivizLinePlot-class	Data container for an Epiviz Line Plot.
EpivizLineTrack	Data container for an Epiviz Line Track.
EpivizLineTrack-class	Data container for an Epiviz Line Track.
epivizNav	Initialize an 'EpivizNavigation' object to visualize in viewer or knit to HTML.
EpivizNavigation	Data container for an Epiviz navigation component.
EpivizNavigation-class	Data container for an Epiviz navigation component.
EpivizScatterPlot	Data container for an Epiviz Scatter Plot.
EpivizScatterPlot-class	Data container for an Epiviz Scatter Plot.
EpivizStackedBlocksTrack	Data container for an Epiviz Blocks Track.
EpivizStackedBlocksTrack-class	Data container for an Epiviz Blocks Track.
EpivizStackedLinePlot	Data container for an Epiviz Stacked Line Plot.
EpivizStackedLinePlot-class	Data container for an Epiviz Stacked Line Plot.
EpivizStackedLineTrack	Data container for an Epiviz Stacked Line Track.
EpivizStackedLineTrack-class	Data container for an Epiviz Stacked Line Track.
EpivizViewComponent	Data container for an Epiviz web component.
EpivizViewComponent-class	Data container for an Epiviz web component.
EpivizWebComponent	Data container for an Epiviz Web component.
EpivizWebComponent-class	Data container for an Epiviz Web component.
get_available_chart_types	Construct URL for Websocket connection between R and UI
get_registered_data_types	Construct URL for Websocket connection between R and UI
HeatmapPlot	Method to add Heatmap Plot
HeatmapPlot-method	Method to add Heatmap Plot
json_parser	JSON parser used by this package
json_writer	JSON writer used by this package
LinePlot	Method to add Line Plot
LinePlot-method	Method to add Line Plot
LineTrack	Method to add Line Track
LineTrack-method	Method to add Line Track
plot-method	Generic methods to plot charts and add navigation regions
rand_id	Random ID generator for epiviz charts
ScatterPlot	Method to add Scatter Plot
ScatterPlot-method	Method to add Scatter Plot
StackedBlocksTrack	Method to add Stacked Blocks Track
StackedBlocksTrack-method	Method to add Stacked Blocks Track
StackedLinePlot	Method to add Stacked Line Plot
StackedLinePlot-method	Method to add Stacked Line Plot
StackedLineTrack	Method to add Stacked Line Track
StackedLineTrack-method	Method to add Stacked Line Track
sumexp	Example SummarizedExperiment for epivizr vignette
tcga_colon_blocks	Example methylation data (blocks) for epivizr vignette.
tcga_colon_curves	Example methylation data (smoothed methylation levels) for epivizr vignette
tcga_colon_expression	Example exon-level RNAseq data from TCGA project for epivizr vignette.