Spatial Cell Clustering

Clusters cells based on their spatial coordinates using k-means or hierarchical clustering.

Usage

spatial_clusters(dt, k, method = c("kmeans", "hierarchical"))

Arguments

dt

A data.table with columns x and y.

k

Integer. Number of clusters.

method

Character string. Clustering method: "kmeans" (default) or "hierarchical".

Value

The input data.table with an added cluster column.

Examples

dt <- data.table::data.table(
  sample_id = "s1", cell_id = 1:50,
  x = c(rnorm(25, 0, 5), rnorm(25, 50, 5)),
  y = c(rnorm(25, 0, 5), rnorm(25, 50, 5))
)
result <- spatial_clusters(dt, k = 2)
table(result$cluster)
#> 
#>  1  2 
#> 25 25