NEWS.md
tooltip.signif to registerAppOptions() to regulate the number of significant digits shown in the tooltip.DotPlot panels including colData or rowData information.DT::datatable() prior to selectInput().2.9.3 breaking re-rendering of reactivated panels.ComplexHeatmapPlot panel when dimension of an incoming multiple selection is dismissed by the options of the child panel.Table panels to a fixed message, as the panel is not re-rendered when search boxes are used.ComplexHeatmapPlot panels when displaying incoming column selection.ComplexHeatmapPlot panel when an incoming row selection changes if custom rows are in use. The partial bugfix only applies if the ComplexHeatmapPlot also disables the restriction on any incoming column selection.ComplexHeatmapPlot.ComplexHeatmapPlot..getCachedCommonInfo.iSEEOptions in favor of panelDefaults (for construction-time globals) and registerAppOptions (for runtime globals)..allowableColorByDataChoices generic for downstream panels to control ColorBy*Data choices..getDotPlotColorHelp utility.RowDotPlot color tour.ComplexHeatmapPlot.SelectionEffect="Color" in favor of ColorBy="Column selection" and ColorBy="Row selection".SelectionColor as the coloring for selections is determined using colDataColorMap() instead.SelectionEffect="Restrict" in favor of ColumnSelectionRestrict and RowSelectionRestrict.ColumnSelectionType and ColumnSelectionSaved (ditto for rows) as all active/saved selections are now transmitted.cleanDataset() generic to ensure all names in the SummarizedExperiment are present and unique.saveState= argument.ComplexHeatmapPlot documentation.ComplexHeatmapPlot observers, most obviously for the assay choice..refineParameters() for FeatureAssayPlot, SampleAssayPlot protects the x-axis choice against absent metadata.initial= in iSEE().ColorByFeatureDynamicSource UI element in ColumnDotPlots.DotPlot.[[<- assignment into Panel classes.DotPlot panels.Table panels..definePanelTour() generic.HiddenColumns mechanism to all Table subclasses.Tables when the number of columns change.Table multiple selections..defineOutput signature..exportOutput method for the ComplexHeatmapPlot class.ComplexHeatmapPlot class.createLandingPage() man page.CustomRowsText slot in the ComplexHeatmapPlot constructor.*DynamicSource slots.TENxPBMCData to Suggests:.ReducedDimensionPlot() man page.renderDT to rerun expression upon panel reorg.bioconductor/bioconductor_docker:devel.NA groupings in subsetPointsByGrid().rowData in RowDotPlot panels..create_visual_box().selected.color to single selections.panel.width, panel.height, and assay to global options..checkboxInputHidden().iSEEOptions..allowableYAxisChoices() and .allowableXAxisChoices() methods to intercept choices of x/y-axis variables.iSEE() in no-SE mode) for enterprise deployments.se objects missing dimnames.createCustomPlot() and createCustomTable() to provide on-ramp for making customized panels.iSEEOptions.ComplexHeatmap.rbind() of data.frame and DataFrame objects.&& with variable length greater than 1.scater argument.SingleCellExperiment::clearSpikes(), SingleCellExperiment::clearSizeFactors().aceEditor() and fileInput().isColorMapCompatible() to checkColormapCompatibility().checkColormapCompatibility().scater::normalize() by scater::logNormCounts().redDimPlotDefaults() against empty reducedDims.ReprocessedAllenData() to load only tophat_counts assay.ReprocessedAllenData() following the deprecation of data(allen).Name field of initialPanels.NA values when computing the range of coloring scales.annotateEnsembl().?defaults help page by panel type.sapply().importFrom instructions closer to the relevant code.plot.data beyond X and Y in all.coordinates. See constant .allCoordinatesNames. Necessary for correct behaviour of brushes on faceted plots.