trim_samples: Filter samples by previously calculated single-cell metrics

In johannesnicolaus/ASURAT_source: Assisting Interpretable Classifications in Single-cell Transcriptomics

Description

Filter samples by previously calculated single-cell metrics

Usage

trim_samples(
  obj,
  min_nReads = 0,
  max_nReads = 1e+10,
  min_nGenes = 0,
  max_nGenes = 1e+10,
  min_percent_MT = 0,
  max_percent_MT = 100
)

Arguments

obj	ASURAT object
min_nReads	Minimal number of total read counts per cell.
max_nReads	Maximal number of total read counts per cell.
min_nGenes	Minimal number of detected genes per cell.
max_nGenes	Maximal number of detected genes per cell.
min_percent_MT	Minimal percentage of mitochondrial gene expression per cell.
max_percent_MT	Maximal percentage of mitochondrial gene expression per cell.

Value

ASURAT object.

Examples

trim_samples(obj = pbmc_4000,
min_nReads = 2606, max_nReads = 30000,
min_nGenes = 993, max_nGenes = 1e+10,
min_percent_MT = 0, max_percent_MT = 14)

johannesnicolaus/ASURAT_source documentation built on Dec. 21, 2021, 2:11 a.m.