Package index • cdQuPath

All functions
`CodexPredefined`	Predefined variables
`JaccardIndex()`	Calculate Jaccard Index
`alignScRNAseqToCodex()`	Align the single cell RNAseq data to codex data
`buildClassifier()`	Build a generalized k-Nearest Neighbors Classifier for given reference
`buildClassifierFromSeurat()`	create a KNN classifier by a given Seurat object
`coOccurrence()`	Get co-occurrence for given bins
`createSeuratObj()`	Create Seurat object
`detectCellType()`	Assign cell type
`dynamicRanges()`	Calculate the dynamic range.
`filetype()`	check file type
`findNearCellsByRadius()`	Find the nearby cells by a given distance
`findVarMarkers()`	Find variable markers
`fitGMM()`	Rescale data using GMM
`ggHeatmap()`	plot heatmap by ggplot2
`loessSmooth()`	Normalize the signal by Loess
`markerCorrelation()`	create marker correlation heatmap
`neighborhoodsAna()`	Neighborhoods analysis
`normData()`	Do normalization
`normalize.loess()`	loess normalization
`plotJaccardIndex()`	Plot a heatmap for JaccardIndex output
`predictCelltypes()`	predict celltypes by gknn classifier
`spatialScore()`	Calculate spatial score

Reference