db_Scrublet: Run doublet-calling with Scrublet
In zh542370159/SCP: Single Cell Pipeline

db_Scrublet

R Documentation

Run doublet-calling with Scrublet

Description

This function performs doublet-calling using the scrublet(python) package on a Seurat object.

Usage

db_Scrublet(srt, assay = "RNA", db_rate = ncol(srt)/1000 * 0.01, ...)

Arguments

`srt`	A Seurat object.
`assay`	The name of the assay to be used for doublet-calling. Default is "RNA".
`db_rate`	The expected doublet rate. Default is calculated as ncol(srt) / 1000 * 0.01.
`...`	Additional arguments to be passed to scrublet.Scrublet function.

Examples

data("pancreas_sub")
pancreas_sub <- db_Scrublet(pancreas_sub)
CellDimPlot(pancreas_sub, reduction = "umap", group.by = "db.Scrublet_class")
FeatureDimPlot(pancreas_sub, reduction = "umap", features = "db.Scrublet_score")

zh542370159/SCP documentation built on Nov. 22, 2023, 2:34 a.m.