get_subclusters: Perform leiden subclustering to get cell subtypes

In scITD: Single-Cell Interpretable Tensor Decomposition

Perform leiden subclustering to get cell subtypes

Description

Perform leiden subclustering to get cell subtypes

Usage

get_subclusters(
  container,
  ctype,
  resolution,
  min_cells_group = 50,
  small_clust_action = "merge"
)

Arguments

container	environment Project container that stores sub-containers for each cell type as well as results and plots from all analyses
ctype	character The cell type to do subclustering for
resolution	numeric The leiden resolution to use
min_cells_group	numeric The minimum allowable cluster size (default=50)
small_clust_action	character Either 'remove' to remove subclusters or 'merge' to merge clusters below min_cells_group threshold to the nearest cluster above the size threshold (default='merge')

Value

A vector of cell subclusters.

scITD documentation built on Sept. 8, 2023, 5:11 p.m.