basic_qc: Basic Quality Control

In scRNAstat: A Pipeline to Process Single Cell RNAseq Data

Description

add 'percent_mito','percent_ribo','percent_hb' to the Seurat class. And draw 'VlnPlot' for these 'qc' values.

Usage

basic_qc(sce, org = "human", group = "orig.ident", dir = ".")

Arguments

sce	An object of class Seurat
org	human or mouse, default: human
group	default:'orig.ident',you can change it to 'seurat_clusters' or 'celltype'
dir	the path for saving the figures by 'DotPlot' with known famous markers.

Value

list(p1,p2,p3,sce), the last one in the new 'sce'.

Examples

basic_qc(AJ064_small_sce,dir= tempdir())

scRNAstat documentation built on Sept. 22, 2021, 9:07 a.m.