image-methods {xps}R Documentation

Display an Image

Description

Creates an image for each sample.

Usage

image(x, bg = FALSE, transfo = log2, col = gray((0:64)/64), names = "namepart", xlab = "", ylab = "", ...)

Arguments

x object of class DataTreeSet.
bg logical. If FALSE, intensities from slot data will be used; if TRUE, background intensities from slot bgrd will be used.
transfo a valid function to transform the data, usually “log2”, or “0”.
col color range for intensities.
names optional vector of sample names.
... optional arguments to be passed to image.

Details

Creates an image for each array. For bgrd=TRUE the distribution of the computed background intensities will be shown; this can be useful to see potential density gradients caused by hybridization conditions. For the computation of background intensities see function bgcorrect; it is suggested to use bgcorrect.mas4 to identify density gradients.

For names=NULL full column names of slot data will be displayed while for names="namepart" column names will be displayed without name extension. If names is a vector of column names, only these columns will displayed as image.

Note

Data must first be attached to class DataTreeSet using method attachInten.

Author(s)

Christian Stratowa

See Also

image.dev, image


[Package xps version 1.2.10 Index]