scDGE: Differential gene expression analysis for each cluster...

In ncrna/SCKIT: Yet Another Single-Cell Analysis Toolkit (Yeskit)

Description

Differential gene expression analysis for each cluster Perform differential analysis (DE) between two groups for each clusters

Usage

scDGE(
  object = object,
  comparison = c("condA", "condB"),
  group.by = NULL,
  min.cells = 20,
  logFC = 0.25,
  clusters = NULL
)

Arguments

object	Seurat object.
comparison	Vector of nominal variables from group.by. Eg., comparison=c('Normal', 'Tumor')
group.by	Regroup cells before performing DGE, default group.by='group'
min.cells	Minimum number of cells to perform DGE, default min.cells=20
logFC	A positive value to set the cutoff of logFC, default logFC=0.25
clusters	Vector of Clusters to perform DGE, default clusters=NULL, which means all clusters will be performed

Value

DGE Table

Author(s)

rstatistics

ncrna/SCKIT documentation built on Jan. 2, 2022, 10:59 a.m.