plotFB {limma} | R Documentation

## FB-Plot

### Description

Creates foreground-background plots.

### Usage

    ## S3 method for class 'RGList'
    plotFB(x, array = 1, lim = "separate", pch = 16, cex = 0.3,
         xlab = "log2 Background", ylab = "log2 Foreground", main = colnames(x)[array], ...)
    ## S3 method for class 'EListRaw'
    plotFB(x, array = 1, pch = 16, cex=0.3,
         xlab = "log2 Background", ylab = "log2 Foreground", main = colnames(x)[array], ...)

### Arguments

`x` | an `RGList` or `EListRaw` object.
`array` | integer giving the array to be plotted.
`lim` | character string indicating whether the red and green plots should have `"separate"` or `"common"` x- and y- co-ordinate limits.
`pch` | vector or list of plotting characters. Defaults to integer code 16.
`cex` | numeric vector of plot symbol expansions.
`xlab` | character string, label for x-axis.
`ylab` | character string, label for y-axis.
`main` | character string, title for plot.
`...` | any other arguments are passed to `plot`.

### Details

A foreground-background plot is a plot of log2-foreground vs log2-background for a particular array. For two-color arrays, this function produces a pair of plots, one for the green channel and one for the red.

See `points` for possible values for `pch`, `col` and `cex`.

### Value

A plot is created on the current graphics device.

### Author(s)

Gordon Smyth

### See Also

An overview of diagnostic functions available in LIMMA is given in 09.Diagnostics.

[Package limma version 3.42.2 Index]