corrPlot: Correlation plot

In crukci-bioinformatics/qPLEXanalyzer: Tools for quantitative proteomics data analysis

Correlation plot

Description

Computes and display correlation plot for samples within MSnSet

Usage

corrPlot(
  MSnSetObj,
  addValues = TRUE,
  title = "",
  low_cor_colour = "#FFFFFF",
  high_cor_colour = "#B90505",
  low_cor_limit = 0,
  high_cor_limit = 1,
  textsize = 3
)

Arguments

MSnSetObj	MSnSet; an object of class MSnSet
addValues	logical: adds correlation values to the plot
title	character; title of the plot
low_cor_colour	colour; colour for lowest correlation in scale
high_cor_colour	colour; colour for highest correlation in scale
low_cor_limit	numeric; lower limit for correlation in colour scale
high_cor_limit	numeric; upper limit for correlation in colour scale
textsize	integer: set the size of correlation values text

Value

An object created by ggplot

Examples

data(human_anno)
data(exp3_OHT_ESR1)
MSnSet_data <- convertToMSnset(exp3_OHT_ESR1$intensities_qPLEX1,
    metadata=exp3_OHT_ESR1$metadata_qPLEX1,
    indExpData=c(7:16), 
    Sequences=2, 
    Accessions=6)
corrPlot(MSnSet_data, addValues=TRUE, title="Correlation plot")

# change colours
corrPlot(MSnSet_data, addValues=TRUE, title="Correlation plot", 
    low_cor_colour="yellow", high_cor_colour="pink")

crukci-bioinformatics/qPLEXanalyzer documentation built on Sept. 24, 2024, 1:13 a.m.