draw_volcano: draw a volcano plot
In tinyarray: Expression Data Analysis and Visualization

draw_volcano

R Documentation

draw a volcano plot

Description

warning a volcano plot for Differential analysis result in data.frame format.

Usage

draw_volcano(
  deg,
  lab = NA,
  xlab.package = TRUE,
  pvalue_cutoff = 0.05,
  logFC_cutoff = 1,
  pkg = 1,
  adjust = TRUE,
  change_col = "change",
  symmetry = FALSE,
  color = c("#2874C5", "grey", "#f87669")
)

Arguments

`deg`	a data.frame created by Differential analysis
`lab`	label for x axis in volcano plot; when 'NA', pkg = 4 uses 'log2FoldChange', and the other package codes keep their original labels
`xlab.package`	whether to use the package name as the x axis name
`pvalue_cutoff`	Cutoff value of pvalue,0.05 by default.
`logFC_cutoff`	Cutoff value of logFC,1 by default.
`pkg`	a integer ,means which Differential analysis packages you used,we support three packages by now, 1,2,3,4 respectively means "DESeq2","edgeR","limma(voom)","limma"; pkg = 4 uses 'log2FoldChange' as the default x-axis label.
`adjust`	a logical value; if TRUE, use `padj` and plot `-log10(padj)`; otherwise use `P.value` and plot `-log10(P.value)`.
`change_col`	column name for the up/down/status label. Default uses 'change' when it exists; otherwise the function falls back to the existing automatic classification logic.
`symmetry`	a logical value ,would you like to get your plot symmetrical
`color`	color vector

Value

a volcano plot according to logFC and either -log10(P.value) or -log10(padj), depending on adjust.

Author(s)

Xiaojie Sun

Examples


head(deseq_data)
draw_volcano(deseq_data)
draw_volcano(deseq_data,pvalue_cutoff = 0.01,logFC_cutoff = 2)
draw_volcano(deseq_data,color = c("darkgreen", "darkgrey", "#B2182B"))

tinyarray documentation built on Aug. 2, 2026, 9:07 a.m.