iSEE Universe

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Documentation for package ‘iSEEu’ version 1.0.1

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D G I M R U V misc

-- D --

DifferentialStatisticsTable Differential statistics table
DifferentialStatisticsTable-class Differential statistics table
DynamicReducedDimensionPlot Dynamic reduced dimension plot
DynamicReducedDimensionPlot-class Dynamic reduced dimension plot

-- G --

GeneSetTable Gene set table
GeneSetTable-class Gene set table

-- I --

initialize-method Differential statistics table
initialize-method Dynamic reduced dimension plot
initialize-method Gene set table
initialize-method The MAPlot class
initialize-method The ReducedDimensionHexPlot class
initialize-method The VolcanoPlot class

-- M --

MAPlot The MAPlot class
MAPlot-class The MAPlot class
modeEmpty App pre-configured to launch with no visible panel
modeGating App pre-configured to link multiple feature assay plots
modeReducedDim App pre-configured to compare multiple reduced dimension plots

-- R --

ReducedDimensionHexPlot The ReducedDimensionHexPlot class
ReducedDimensionHexPlot-class The ReducedDimensionHexPlot class

-- U --

utils-de Acceptable fields for DE panels
utils-geneset Gene set utilities

-- V --

VolcanoPlot The VolcanoPlot class
VolcanoPlot-class The VolcanoPlot class

-- misc --

.allowableXAxisChoices-method The MAPlot class
.allowableXAxisChoices-method The VolcanoPlot class
.allowableYAxisChoices-method The MAPlot class
.allowableYAxisChoices-method The VolcanoPlot class
.cacheCommonInfo-method Differential statistics table
.cacheCommonInfo-method Dynamic reduced dimension plot
.cacheCommonInfo-method The MAPlot class
.cacheCommonInfo-method The ReducedDimensionHexPlot class
.cacheCommonInfo-method The VolcanoPlot class
.colorByNoneDotPlotField-method The MAPlot class
.colorByNoneDotPlotField-method The VolcanoPlot class
.colorByNoneDotPlotScale-method The MAPlot class
.colorByNoneDotPlotScale-method The VolcanoPlot class
.createObservers-method Differential statistics table
.createObservers-method Dynamic reduced dimension plot
.createObservers-method Gene set table
.createObservers-method The MAPlot class
.createObservers-method The ReducedDimensionHexPlot class
.createObservers-method The VolcanoPlot class
.defineDataInterface-method Differential statistics table
.defineDataInterface-method Dynamic reduced dimension plot
.defineDataInterface-method Gene set table
.defineDataInterface-method The MAPlot class
.defineDataInterface-method The VolcanoPlot class
.defineOutput-method Gene set table
.defineVisualOtherInterface-method The ReducedDimensionHexPlot class
.defineVisualShapeInterface-method The ReducedDimensionHexPlot class
.defineVisualSizeInterface-method The ReducedDimensionHexPlot class
.fullName-method Differential statistics table
.fullName-method Dynamic reduced dimension plot
.fullName-method Gene set table
.fullName-method The MAPlot class
.fullName-method The ReducedDimensionHexPlot class
.fullName-method The VolcanoPlot class
.generateDotPlot-method The MAPlot class
.generateDotPlot-method The ReducedDimensionHexPlot class
.generateDotPlot-method The VolcanoPlot class
.generateDotPlotData-method Dynamic reduced dimension plot
.generateDotPlotData-method The MAPlot class
.generateDotPlotData-method The VolcanoPlot class
.generateOutput-method Gene set table
.generateTable-method Differential statistics table
.getAcceptableAveAbFields Acceptable fields for DE panels
.getAcceptableLogFCFields Acceptable fields for DE panels
.getAcceptablePValueFields Acceptable fields for DE panels
.getGeneSetCommands Gene set utilities
.getIdentifierType Gene set utilities
.getOrganism Gene set utilities
.hideInterface-method Differential statistics table
.hideInterface-method Gene set table
.hideInterface-method The MAPlot class
.hideInterface-method The ReducedDimensionHexPlot class
.hideInterface-method The VolcanoPlot class
.multiSelectionActive-method Gene set table
.multiSelectionAvailable-method Gene set table
.multiSelectionClear-method Gene set table
.multiSelectionCommands-method Gene set table
.multiSelectionDimension-method Gene set table
.multiSelectionInvalidated-method Differential statistics table
.multiSelectionInvalidated-method Dynamic reduced dimension plot
.panelColor-method Differential statistics table
.panelColor-method Dynamic reduced dimension plot
.panelColor-method Gene set table
.panelColor-method The MAPlot class
.panelColor-method The ReducedDimensionHexPlot class
.panelColor-method The VolcanoPlot class
.prioritizeDotPlotData-method The MAPlot class
.prioritizeDotPlotData-method The VolcanoPlot class
.refineParameters-method Differential statistics table
.refineParameters-method Dynamic reduced dimension plot
.refineParameters-method The MAPlot class
.refineParameters-method The VolcanoPlot class
.renderOutput-method Gene set table
.setAcceptableAveAbFields Acceptable fields for DE panels
.setAcceptableLogFCFields Acceptable fields for DE panels
.setAcceptablePValueFields Acceptable fields for DE panels
.setGeneSetCommands Gene set utilities
.setIdentifierType Gene set utilities
.setOrganism Gene set utilities