hierarchicalPlot {qPLEXanalyzer} | R Documentation

## Hierarchical clustering plot

### Description

Computes and displays 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 named vector of colors for samples, names should be values of `colourBy` column
`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

An object created by `ggplot`

### Examples

    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 1.8.2 Index]