Accessors | Accessors for SegmentedCells |
as.data.frame.SegmentedCells | as.data.frame |
bind | Produces a dataframe showing L-function metric for each imageID entry. |
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 |
colTest | Perform a simple wilcoxon-rank-sum test or t-test on the columns of a data frame |
convPairs | Converts colPairs object into an abundance matrix based on number of nearby interactions for every cell type. |
diabetesData | Diabetes IMC data |
diabetesData_SCE | Diabetes IMC data in SCE format. |
filterCells | Accessors for SegmentedCells |
filterCells-method | Accessors for SegmentedCells |
getPairwise | Get statistic from pairwise L curve of a single image. |
getProp | Get proportions from a SegmentedCells, SingleCellExperiment, SpatialExperiment or data.frame. |
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. |
spicyBoxPlot | Plots boxplot for a specified cell-cell relationship |
SpicyResults-class | Performs spatial tests on spatial cytometry data. |
SpicyResults-method | Performs spatial tests on spatial cytometry data. |
spicyTest | Results from spicy for diabetesData |
topPairs | A table of the significant results from spicy tests |
topPairs-method | A table of the significant results from spicy tests |