Calculate proportion of nearest neighbours within batches

Calculate the proportion of nearest neighbours within batches out of a knn graph

Usage

GetPropIntraBatch(
  object,
  batch.var,
  graph.name = "RNA_nn",
  count.self = TRUE,
  per.batch = TRUE
)

object: a Seurat object
batch.var: name of a column in the Seurat object's metadata containing batch information
graph.name: name of a Graph or Neighbor instance stored in object. When available, prefer the distance based network to the connectivities graph (especially when computed with the UMAP method).
count.self: whether to include self-to-self vertices in the calculation
per.batch: whether to keep proportions per batch or to aggregate everything

a vector of length 1 or number of batches, depending on per.batch argument value