attachCellScores.default
                        Attach CSOA scores to object
basicHeatmap            Plot a simple heatmap
breakWeakTies           Remove overlap pairs with low Jaccard scores
cellDistribution        Show the distribution of cell sets among cells
cellSetsOverlaps        Calculates the significance of overlaps of
                        pairs of cells sets
expMat                  Extracts the data expression matrix from object
featureWes              A feature plot with a more distinctive color
                        scheme.
geneRadialPlot          Radial plot for an overlap data frame
generateOverlaps        Generate overlaps of cell sets for input genes
getPairs                Get all unordered pairs of two elements from a
                        vector
overlapCutoffPlot       Plot the selection of overlaps
overlapGenes            Get all genes from an overlap data frame
overlapNetworkPlot      Plot the overlaps as a network
overlapPairs            Extract gene pairs from overlap data frame
percentileSets          Generates cell expressing input genes at an
                        input percentile
processOverlaps         Process data frame of overlaps of cell sets
qGrab                   Read and delete a .qs2 file
runCSOA                 Run the CSOA pipeline
scoreCells              Generate CSOA scores from overlap data frame
                        and list of pairs
scoreModules            Run CSOA separately on the connected components
                        of the overlap graph
