plotDE: Plot gene differential expressions

In Linlab-slu/TSSr: TSS sequencing data analysis

Plot gene differential expressions

Description

Vocano plots of gene differential expression (with DESeq2 method) results.

Usage

plotDE(object, withGeneName = "TRUE",xlim, ylim)

## S4 method for signature 'TSSr'
plotDE(object, withGeneName = "TRUE", xlim = c(-2.5, 2.5), ylim = c(0, 10))

Arguments

object	A TSSr object.
withGeneName	Specify whether to display names for genes which are differentially expressed. Default is "TRUE".
xlim	Only enes of which log2FoldChange value within the xlim range are plotted. Default xlim = c(-2.5, 2.5).
ylim	Only genes of which -log10(pvalue) within the ylim range are plotted. Default ylim = c(0, 10).

Value

gene differential expression visualized in a graph

Examples

data(exampleTSSr)
#plotDE(exampleTSSr, withGeneName = "TRUE")
#plotDE(exampleTSSr, withGeneName = "FALSE")

Linlab-slu/TSSr documentation built on Oct. 24, 2023, 8:32 p.m.