Plot gene differential expressions

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

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

# S4 method for 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).

Examples

# \donttest{
plotDE(exampleTSSr, withGeneName = "TRUE")
#> Plotting DE graphs...
#> pdf 
#>   2 
plotDE(exampleTSSr, withGeneName = "FALSE")
#> Plotting DE graphs...
#> pdf 
#>   2 
# }