Plot the concordex map matrix as a heatmap — heatConcordex • concordexR

The calculateConcordex function returns a matrix showing the number of cells of each label in the neighborhood of cells of each label when argument return.map = TRUE. This function plots this matrix as a heatmap, which can be used as a clustering diagnostic.

Usage

heatConcordex(concordex, ...)

Arguments

concordex: Output from calculateConcordex.
...: Other arguments passed to pheatmap to customize the plot.

Value

A pheatmap object.

Examples

library(BiocNeighbors)
g <- findKNN(iris[, seq_len(4)], k = 10)
#> Warning: detected tied distances to neighbors, see ?'BiocNeighbors-ties'
res <- calculateConcordex(g$index,
    labels = iris$Species, k = 10,
    return.map = TRUE
)
heatConcordex(res)