pairs.AffyBatch {affy} | R Documentation

## plot intensities using 'pairs'

### Description

Plot intensities using the function 'pairs'

### Usage

    ## S3 method for class 'AffyBatch'
    pairs(x, panel=points, ..., transfo=I, main=NULL, oma=NULL,
                      font.main = par("font.main"),
                      cex.main = par("cex.main"), cex.labels = NULL,
                      lower.panel=panel, upper.panel=NULL, diag.panel=NULL,
                      font.labels = 1, row1attop = TRUE, gap = 1)

### Arguments

`x` | an `AffyBatch` object.
`panel` | a function to produce a plot (see `pairs`).
`...` | extra parameters for the 'panel' function.
`transfo` | a function to transform the intensity values before generating the plot. 'log' and 'log2' are popular choices.
`main` | title for the plot
`oma` | see 'oma' in `par`.
`font.main` | see `pairs`.
`cex.main` | see `pairs`.
`cex.labels` | see `pairs`.
`lower.panel` | a function to produce the plots in the lower triangle (see `pairs`).
`upper.panel` | a function to produce the plots in the upper triangle (see `pairs`).
`diag.panel` | a function to produce the plots in the diagonal (see `pairs`).
`font.labels` | see `pairs`.
`row1attop` | see `pairs`.
`gap` | see `pairs`.

### Details

Plots with several chips can represent zillions of points. They require a lot of memory and can be very slow to be displayed. You may want to try to split of the plots, or to plot them in a device like 'png' or 'jpeg'.

[Package affy version 1.64.0 Index]