plotRatioScatter {Starr} | R Documentation

## Plot ratios of all possible combinations of IP and CONTROL

### Description

A matrix of pairwise scatterplots of the ratios is created. The lower panel shows the correlation of the data.

### Usage

    plotRatioScatter(eSet, ip, control, density=F, sample=NULL, cluster=T, cex=1)

### Arguments

`eSet` | an ExprssionSet or matrix, containing the data
`ip` | an integer, or boolean vector, that indicates, which columns in the ExpressionSet are IP experiments
`control` | an integer, or boolean vector, that indicates, which columns in the ExpressionSet are CONTROL or REFERENCE experiments
`density` | if TRUE, a density scatter plot is plotted. This plot shows the density of the data.
`sample` | An integer, indicating the number of subsamples to take for the density scatterplot. This is only recommended if the data is very large, as the density computation takes some time.

#

`cluster` | if cluster=T, the experiments are clustered and similiar experiments are plotted together.
`cex` | see ?par

### Author(s)

Benedikt Zacher zacher@lmb.uni-muenchen.de

### See Also

`pairs`, `densityscatter`

### Examples

    ##
    points <- 10^4
    x <- rnorm(points/2)
    x <- c(x,x+2.5)
    x <- sign(x)*abs(x)^1.3
    y <- x + rnorm(points,sd=0.8)
    z <- y*2
    mat <- matrix(c(x,y,z), ncol=3)
    colnames(mat) <- c("A", "B1", "B2")
    plotRatioScatter(mat, c(TRUE, FALSE, FALSE), c(FALSE, TRUE, TRUE), density=TRUE)

[Package Starr version 1.36.0 Index]