readDcpRectangle {dChipIO}R Documentation

Reads a spatial subset of probe-level data from a dChip DCP file

Description

Reads a spatial subset of probe-level data from a dChip DCP file.

Usage

readDcpRectangle(filename, fields=c("rawIntensities", "normalizedIntensities"), xrange=c(0, Inf), yrange=c(0, Inf), ..., asMatrix=TRUE)

Arguments

filename The pathname of the DCP file.
fields The cell fields to be read.
xrange A numeric vector of length two giving the left and right coordinates of the cells to be returned.
yrange A numeric vector of length two giving the top and bottom coordinates of the cells to be returned.
asMatrix If TRUE, the CEL data fields are returned as matrices with element (1,1) corresponding to cell (xrange[1],yrange[1]).
... Additional arguments passed to readDcp().

Value

A named list CEL structure similar to what readDcp(). In addition, if asMatrix is TRUE, the CEL data fields are returned as matrices, otherwise not.

Author(s)

Henrik Bengtsson (http://www.braju.com/R/)

See Also

The readDcp() method is used internally. This method was inspired by readCelRectangle of the affxparser package.

Examples

path <- system.file("exData", package="dChipIO")

filename <- "Test3-1-121502.dcp"
pathname <- file.path(path, filename)

data <- readDcpRectangle(pathname)

layout(matrix(1:4, nrow=2, byrow=TRUE))
image(data$rawIntensities, main="Raw probe signals")
image(data$normalizedIntensities, main="Normalized probe signals")
[Package dChipIO version 0.1.1 Index]