# Interactive SummarizedExperiment Explorer

## Documentation for package ‘iSEE’ version 1.2.0

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

## Help Pages

iSEE-pkg-package | iSEE: interactive SummarizedExperiment/SingleCellExperiment Explorer
annotateEnsembl | Annotation via ENSEMBL database
annotateEntrez | Annotation via Entrez database
assay-method | ExperimentColorMap class
assayColorMap | ExperimentColorMap class
assayColorMap-method | ExperimentColorMap class
assayColorMap<- | ExperimentColorMap class
assayColorMap<--method | ExperimentColorMap class
assayNames-method | ExperimentColorMap class
assayNames<--method | ExperimentColorMap class
assays-method | ExperimentColorMap class
assays<--method | ExperimentColorMap class
availablePanelTypes | Available panel types
class:ExperimentColorMap | ExperimentColorMap class
colData-method | ExperimentColorMap class
colData<--method | ExperimentColorMap class
colDataColorMap | ExperimentColorMap class
colDataColorMap-method | ExperimentColorMap class
colDataColorMap<- | ExperimentColorMap class
colDataColorMap<--method | ExperimentColorMap class
colDataPlotDefaults | Column data plot defaults
colStatTableDefaults | Column statistics table defaults
customDataPlotDefaults | Custom data plot defaults
customStatTableDefaults | Custom statistics table defaults
ExperimentColorMap | ExperimentColorMap class
ExperimentColorMap-class | ExperimentColorMap class
featAssayPlotDefaults | Feature assay plot defaults
heatMapPlotDefaults | Heatmap defaults
isColorMapCompatible | Check compatibility between ExperimentColorMap and SummarizedExperiment objects
iSEE | iSEE: interactive SummarizedExperiment/SingleCellExperiment Explorer
iSEE point parameters | Point plot aesthetic parameters
iSEE selection parameters | Selection parameters
iSEE-pkg | iSEE: interactive SummarizedExperiment/SingleCellExperiment Explorer
jitterSquarePoints | Jitter points for categorical variables
jitterViolinPoints | Jitter points for categorical variables
lassoPoints | Find rows of data within a closed lasso
modeGating | App pre-configured to link multiple feature assay plots
panelCodes | Available panel types
panelTypes | Available panel types
redDimPlotDefaults | Reduced dimension plot defaults
rowData-method | ExperimentColorMap class
rowData<--method | ExperimentColorMap class
rowDataColorMap | ExperimentColorMap class
rowDataColorMap-method | ExperimentColorMap class
rowDataColorMap<- | ExperimentColorMap class
rowDataColorMap<--method | ExperimentColorMap class
rowDataPlotDefaults | Row data plot defaults
rowStatTableDefaults | Row statistics table defaults
sampAssayPlotDefaults | Sample assay plot defaults
subsetPointsByGrid | Subset points for faster plotting
synchronizeAssays | Synchronize assay colormaps to match those in a SummarizedExperiment