hierarchicalPlot {qPLEXanalyzer}R Documentation

Hierarchical plot

Description

Computes and display hierarchical clustering plot for samples in MSnSet

Usage

hierarchicalPlot(MSnSetObj, sampleColours=NULL, colourBy="SampleGroup", horizontal=TRUE,
                             title="")

Arguments

MSnSetObj

MSnSet; an object of class MSnSet

sampleColours

character: a vector of colors for samples

colourBy

character: column name from pData(MSnSetObj) to use for coloring samples

horizontal

logical: define orientation of the dendrogram

title

character: the main title for the dendrogram

Value

A hierarchical clustering plot for quantitative proteomics data.

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)
exprs(MSnSet_data) <- exprs(MSnSet_data)+0.01
hierarchicalPlot(MSnSet_data, title="qPLEX_RIME_ER")

[Package qPLEXanalyzer version 1.6.0 Index]