plotBox {sights} | R Documentation

## Boxplot

### Description

Construct an ordered boxplot for each plate

### Usage

    plotBox(plotMatrix, plotRows = NULL, plotCols = NULL, plotName = NULL,
      repIndex = NULL, plotSep = TRUE, ...)

### Arguments

`plotMatrix` | Data frame or numeric matrix. Columns are plates, and rows are plate wells.
`plotRows, plotCols` | Optional integer vector. Indicate which row/column numbers from the plotMatrix should be plotted. If NULL then all rows/columns from the plotMatrix are used.
`plotName` | Optional. Name of plotMatrix for plot title.
`repIndex` | Optional. Vector of labels indicating replicate group. Each index in the vector matches the corresponding column of plotMatrix. If NULL then all plates are plotted together without grouping.
`plotSep` | Optional logical. Should plots of different replicate groups be presented in separate windows? Default is TRUE. Does not apply if repIndex is NULL.
`...` | Optional. Additional parameters passed to `geom_boxplot`.

### Details

Box plots can be used to identify scaling shifts among replicates and view the general distribution of data among all plates.

### Value

Modifiable ggplot2 object or list of objects

### See Also

Other graphical devices: `plot3d`, `plotAutoco`, `plotHeatmap`, `plotHist`, `plotIGFit`, `plotScatter`

### Examples

    ## load dataset
    data(ex_dataMatrix)

    ## plot raw data
    plotBox(plotMatrix = ex_dataMatrix, repIndex = c(1,1,1,2,2,2), plotCols = 5:10,
    plotName = 'Example')
    ## normalize data matrix using any method and store in new variable
    ex_normMatrix <- normZ(dataMatrix = ex_dataMatrix, dataCols = 5:10)
    ## plot normalized data
    plotBox(plotMatrix = ex_normMatrix, repIndex = c(1,1,1,2,2,2), plotName = 'Example')

[Package sights version 1.12.0 Index]