Apply chosen k/res to an object (returns updated object)

Apply chosen k/res to an object (returns updated object)

Usage

apply_tuned_clustering(
  obj,
  dims_use,
  k_best,
  res_best,
  prune = 0.1,
  algorithm = 4,
  seed = 1
)

Arguments

obj

Seurat object to update

dims_use

Integer vector of PC indices used to build the graph

k_best

Integer; chosen k.param

res_best

Numeric; chosen resolution

prune

Numeric; prune.SNN passed to FindNeighbors

algorithm

Integer; clustering algorithm (e.g., 4 = Leiden)

seed

Integer random seed

Value

Updated Seurat object