Cell Density (SpatialCellData)

Estimates local cell density by counting neighbours within a radius.

Usage

CellDensity(object, radius, target = NULL)

Arguments

object

An SpatialCellData-class object.

radius

Numeric. Radius of the neighbourhood.

target

Character or NULL. Restrict to a specific phenotype.

Value

An SpatialCellData-class with density added to meta_data.

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)