plotDiffgenes: plot differentially expressed genes between any two datasets

In liuqivandy/scRNABatchQC: a package for quality control of multiple single cell RNAseq data

Description

plot the differentially expressed genes in any pairwise comparison

Usage

plotDiffgenes(
  scesMerge,
  margins = c(5, 5),
  keysize = 1,
  col = bluered(75),
  ...
)

Arguments

scesMerge	a SingleCellExperiment object; this object contains the combined datasets, pairwise comparison results and reduced dimensions using PCA and tSNE
margins	margins for heatmap.2
keysize	integer for heatmap.2
col	color for heatmap.2
...	parameters passing to heatmap.2

Value

a matrix containing the log2 fold change of differnetially expressed genes in each comparison

See Also

Process_scRNAseq, Combine_scRNAseq

Examples

library(scRNABatchQC)
sces<-Process_scRNAseq(inputfile=c("https://github.com/liuqivandy/scRNABatchQC/raw/master/bioplar1.csv.gz",
                                   "https://github.com/liuqivandy/scRNABatchQC/raw/master/bioplar5.csv.gz"))
scesMerge<-Combine_scRNAseq(sces)
plotDiffgenes(scesMerge)

liuqivandy/scRNABatchQC documentation built on March 24, 2021, 11:01 p.m.