draw_volcano function

draw a volcano plot

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

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

Arguments

• deg: a data.frame created by Differential analysis
• lab: label for x axis in volcano plot, if NA , x axis names by package
• 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"
• adjust: a logical value, would you like to use adjusted pvalue to draw this plot,FAlSE by default.
• symmetry: a logical value ,would you like to get your plot symmetrical
• color: color vector

Returns

a volcano plot according to logFC and P.value(or adjust P.value)

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"))

See Also

draw_heatmap;draw_pca;draw_venn

Author(s)

Xiaojie Sun