ggVolcanoPlot: Plots volcano, data points colored by max cv of the 2...

In eahrne/SafeQuant: A Toolbox for the Analysis of Proteomics Data

Description

Plots volcano, data points colored by max cv of the 2 compared conditions

Usage

ggVolcanoPlot(data = data, title = "", pValueThrs = 0.05,
  log2RatioThrs = 0.5849625, thrsLineCol = "lightgrey", thrsLineLty = 2,
  xlab = "log2 ratio", ylab = "-log10 pValue", textSize = 20,
  xlim = range(data$ratio, na.rm = T), ylim = range(-log10(data$pValue),
  na.rm = T), abline = c("both"), topNlabels = 10)

Arguments

data	data.frame
title	default no title
pValueThrs	default 0.01
log2RatioThrs	default log2(0.5)
thrsLineCol	default "lightgrey"
xlab	default "log2 ratio"
ylab	default "-log10 pValue"
textSize	default 20
xlim	xlim
ylim	ylim
abline	c("none","both","ratio","pvalue")
topNlabels	default 10, label top proteins/peptides ordered by p-value
defalut	2

Details

data.frame input object should contain columns ("ratio","pValue","geneName","ac","cv", "description")

Value

ggplot2 object

Note

No note

References

NA

Examples

print("No examples")

eahrne/SafeQuant documentation built on April 8, 2021, 10:10 a.m.