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Build metacells for one cell type and sample group

Source: R/cell_deconvolution.R
process_group.Rd

Worker function of create_metacells(): runs hdWGCNA's MetacellsByGroups() on the cells of one cell type from one sample and returns the metacell counts and metadata.

Usage

process_group(
  data,
  min_cells = 50,
  k = 15,
  max_shared = 10,
  labels_column,
  samples_column
)

Arguments

data

A Seurat object with the cells of one cell type from one sample (must contain a pca reduction).

min_cells

Minimum number of cells required to build metacells; smaller groups are skipped.

k

Number of nearest neighbours aggregated into each metacell.

max_shared

Maximum number of cells shared between two metacells.

labels_column

Name of the metadata column with the cell type labels.

samples_column

Name of the metadata column with the sample labels.

Value

A list with counts (genes x metacells matrix of summed counts) and metadata (metacell metadata), or NULL if the group has fewer than min_cells cells.