Plot Cell Density — DensityPlot • phenoscapR

Scatter plot with colour scaled by local cell density. Requires CellDensity to have been run.

Usage

DensityPlot(object, pt_size = 1, title = NULL, palette = NULL)

Arguments

object: An SpatialCellData object with a density column.
pt_size: Numeric. Point size. Default 1.
title: Character or NULL.
palette: Character or character vector. Default NULL (global palette).

Value

A ggplot object.

Examples

counts <- matrix(rnorm(100), nrow = 50,
                 dimnames = list(NULL, c("CD3", "CD8")))
coords <- data.frame(x = runif(50, 0, 100), y = runif(50, 0, 100))
obj <- CreateSpatialObject(counts, coords)
obj <- CellDensity(obj, radius = 20)
DensityPlot(obj)