Find doublets using scDblFinder — sn_find

This function identifies potential doublets in a Seurat object by converting it to a SingleCellExperiment and using the scDblFinder package.

Usage

sn_find_doublets(
  object,
  clusters = NULL,
  group_by = NULL,
  dbr_sd = NULL,
  ncores = 1,
  assay = "RNA",
  layer = "counts"
)

object: A Seurat object.
clusters: Optional cluster assignments. If not provided, scDblFinder will attempt automatic clustering.
group_by: An optional metadata column used as the donor or sample grouping.
dbr_sd: A numeric value for adjusting the doublet rate; see scDblFinder documentation.
ncores: Number of cores to use (for parallel processing).
assay: Assay used for doublet detection. Defaults to "RNA".
layer: Layer used as the input count matrix. Defaults to "counts".

The input Seurat object with two new columns in meta.data: scDblFinder.class and scDblFinder.score.

if (FALSE) { # \dontrun{
seurat_obj <- sn_find_doublets(
  seurat_obj,
  clusters = NULL,
  group_by = NULL,
  dbr_sd = NULL,
  ncores = 4
)
} # }