plotMA {codelink} | R Documentation

## MA plot

### Description

Takes a Codelink object and plot M vs A.

### Usage

      plotMA(object, array1=1, array2=2, cutoff=NULL, label="type", type=NULL,
            high.list=NULL, high.col="blue", high.pch="*",
            snr.cutoff=1, legend.x="bottomright", pch=".", subset=NULL,
            title=NULL, xlim=NULL, ylim=NULL)

### Arguments

`object` | an object of class "Codelink" or "MAarrayLM".
`array1` | first array to be used.
`array2` | second array to be used.
`cutoff` | cutoff to be used as fold change markeer.
`label` | type of labeling used in legend.
`type` | spot type information.
`high.list` | list of genes highlighted.
`high.col` | color used for high genes.
`high.pch` | pch used for high genes.
`snr.cutoff` | SNR cutoff used for label spots.
`legend.x` | relative position of the legend.
`pch` | pch style used to main spots.
`subset` | subset of spots used to plot based on 'type' slot.
`title` | title of the plot.
`xlim` | range for the X axis.
`ylim` | range for the Y axis.

### Details

The plot is for M=(array2-array1) vs A=(array2+array1)/2.

### Value

### Note

### Author(s)

Diego Diez

### See Also

### Examples

    #    data(codelink.example)
    #    plotMA(codelink.example)

[Package codelink version 1.2.2 Index]