VulcanoPlot {grandR}

Make a Vulcano plot

Description

Plot log2 fold changes against -log10 multiple testing adjusted P values

Usage

VulcanoPlot(
  data,
  analysis = Analyses(data)[1],
  p.cutoff = 0.05,
  lfc.cutoff = 1,
  annotate.numbers = TRUE,
  ...
)

Arguments

data

the grandR object that contains the data to be plotted

analysis

the analysis to plot (default: first analysis)

p.cutoff

p-value cutoff (default: 0.05)

lfc.cutoff

log fold change cutoff (default: 1)

annotate.numbers

if TRUE, label the number of genes

...

further parameters passed to PlotScatter

Value

a ggplot object