Find Nearest Neighbours (SpatialCellData) — FindNeighbours • phenoscapR

For each cell, computes the distance to the k nearest neighbours.

Usage

FindNeighbours(object, k = 1L, target = NULL)

Arguments

object: An SpatialCellData-class object.
k: Integer. Number of nearest neighbours. Default 1.
target: Character or NULL. Restrict to a specific phenotype.

Value

An SpatialCellData-class with nn_distance added to meta_data and stored in the spatial slot.

Examples

counts <- matrix(rnorm(40), nrow = 20,
                 dimnames = list(NULL, c("CD3", "CD8")))
coords <- data.frame(x = runif(20, 0, 100), y = runif(20, 0, 100))
obj <- CreateSpatialObject(counts, coords)
obj <- FindNeighbours(obj, k = 3)