IdentifyOutliers: Identify oulier clusters

In alexthiery/scHelper: R package containing helper functions for single cell analysis

Identify oulier clusters

Description

This function identifies clusters of cells based on QC metrics of interest. Groups are classed as outliers if the median for a given metric falls outside the provided quantiles.

Usage

IdentifyOutliers(
  seurat_obj,
  group_by = "seurat_clusters",
  metrics,
  intersect_metrics = TRUE,
  quantiles
)

Arguments

seurat_obj	Seurat object
group_by	column to group cells by
metrics	array of metrics to test for outliers
intersect_metrics	boolean value for whether to intersect the outliers for each metric
quantiles	Percent quantiles to plot on bar plots. Must be an array (length 2) with lower and upper percent quantiles

Value

array of clusters which are outliers

alexthiery/scHelper documentation built on Aug. 26, 2023, 3:42 p.m.