Learn R Programming
aroma.affymetrix (version 3.0.0)

getImage.AffymetrixCelFile: Creates an RGB Image object from a CEL file

Description

Creates an RGB Image object from a CEL file.

Usage

"getImage"(this, other=NULL, transforms=list(sqrt), xrange=c(0, Inf), yrange=xrange, zrange=c(0, sqrt(2^16)), field=c("intensities", "stdvs", "pixels"), zoom=1, ..., readRectFcn=NULL, verbose=FALSE)

Arguments

other
An optional AffymetrixCelFile of the same chip type, that is used for calculating the ratio (non-logged). Note, to get the log-ratios, the log() function has to be specified as the first transform in the list of transformations.
xrange, yrange
vectors of length two specifying the (x0,x1) and (y0,y1) regions to be extracted. If NULL, the complete regions is used.
field
One of the CEL file fields, i.e. "intensities", stdvs, or pixels.
zoom
A numeric scale factor in (0,+Inf) for resizing the imaging. If 1, no resizing is done.
palette
An optional vector of color code.
...
Additional arguments passed to *readRawDataRectangle() and more function.
readRectFcn
A function taking arguments 'xrange' and 'yrange', or NULL for the default read function.
verbose
A logical or a Verbose object.

Value

Returns an Image object as defined by the EBImage package. If palette==NULL, the color code is Grayscale, otherwise TrueColor.

See Also

For more information see AffymetrixCelFile.