plotWhiskers {puma} | R Documentation

## Standard errors whiskers plot

### Description

A plot showing error bars for genes of interest.

### Usage

    plotWhiskers(
            eset
    ,       comparisons=c(1,2)
    ,       sortMethod = c("logRatio", "PPLR")
    ,       numGenes=50
    ,       xlim
    ,       main = "PUMA Whiskers plot"
    ,       highlightedGenes=NULL
    )

### Arguments

`eset` | An object of class `ExpressionSet`.
`comparisons` | A 2-element integer vector specifying the columns of data to be compared.
`sortMethod` | The method used to sort the genes. "logRatio" is fold change. PPLR is Probability of Positive Log Ratio (as determined by the `pumaDE` method).
`numGenes` | Integer. Number of probesets to plot.
`xlim` | The x limits of the plot. See `plot.default`.
`main` | A main title for the plot. See `plot.default`.
`highlightedGenes` | Row numbers of probesets to highlight with an asterisk.

### Value

This function has no return value. The output is the plot created.

### Author(s)

Richard D. Pearson

### See Also

Related method `pumaDE`

[Package puma version 1.10.1 Index]