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 1.4.0 Index]