# R interface to epiviz web components

## Documentation for package ‘epivizrChart’ version 1.4.0

- 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.