Spatial analysis of in situ cytometry data


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Documentation for package ‘spicyR’ version 1.8.0

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Accessors Accessors for SegmentedCells
as.data.frame.SegmentedCells as.data.frame
cellAnnotation Accessors for SegmentedCells
cellAnnotation-method Accessors for SegmentedCells
cellAnnotation<- Accessors for SegmentedCells
cellAnnotation<--method Accessors for SegmentedCells
cellID Accessors for SegmentedCells
cellID-method Accessors for SegmentedCells
cellID<- Accessors for SegmentedCells
cellID<--method Accessors for SegmentedCells
cellMarks Accessors for SegmentedCells
cellMarks-method Accessors for SegmentedCells
cellMarks<- Accessors for SegmentedCells
cellMarks<--method Accessors for SegmentedCells
cellMorph Accessors for SegmentedCells
cellMorph-method Accessors for SegmentedCells
cellMorph<- Accessors for SegmentedCells
cellMorph<--method Accessors for SegmentedCells
cellSummary Accessors for SegmentedCells
cellSummary-method Accessors for SegmentedCells
cellSummary<- Accessors for SegmentedCells
cellSummary<--method Accessors for SegmentedCells
cellType Accessors for SegmentedCells
cellType-method Accessors for SegmentedCells
cellType<- Accessors for SegmentedCells
cellType<--method Accessors for SegmentedCells
diabetesData Diabetes IMC data
filterCells Accessors for SegmentedCells
filterCells-method Accessors for SegmentedCells
getPairwise Get statistic from pairwise L curve of a single image.
imageCellID Accessors for SegmentedCells
imageCellID-method Accessors for SegmentedCells
imageCellID<- Accessors for SegmentedCells
imageCellID<--method Accessors for SegmentedCells
imageID Accessors for SegmentedCells
imageID-method Accessors for SegmentedCells
imagePheno Accessors for SegmentedCells
imagePheno-method Accessors for SegmentedCells
imagePheno<- Accessors for SegmentedCells
imagePheno<--method Accessors for SegmentedCells
plot A basic plot for SegmentedCells object
plot,SegmentedCells A basic plot for SegmentedCells object
plot-method A basic plot for SegmentedCells object
SegmentedCells The SegmentedCells class
SegmentedCells-class The SegmentedCells class
SegmentedCells-method The SegmentedCells class
show Show SegmentedCells
show-SegmentedCells Show SegmentedCells
signifPlot Plots result of signifPlot.
spicy Performs spatial tests on spatial cytometry data.
spicy-method Performs spatial tests on spatial cytometry data.
SpicyResults-class Performs spatial tests on spatial cytometry data.
SpicyResults-method Performs spatial tests on spatial cytometry data.
spicyTest Results from spicy for diabetesData
spicyTestBootstrap Results from spicy with bootstrap for diabetesData
topPairs A table of the significant results from spicy tests
topPairs-method A table of the significant results from spicy tests