read.cdffile: Read a CDF file

In makecdfenv: CDF Environment Maker

Description

Read the data contained in a CDF file

Usage

read.cdffile(file, compress=FALSE)

Arguments

file	the name of the CDF file
compress	whether the file is compressed or not

Details

This function is intended for use by make.cdf.env, which in turn is called by make.cdf.package. User may not have much benefit from calling this function directly.

In order to save memory, the name corresponding to each value in the CEL is a factor. As in R factor objects cannot be also of type matrix, the names corresponding to the indices were stored in a vector of type character called name.levels. The same thing was done with the pbase and cbase information (more for consistency than by conviction that some memory could be saved here).

Value

Returns a Cdf-class object.

Note

A Cdf object is not a cdf environment, which will be needed for the computation of expression values from the probe intensities in a AffyBatch.

Author(s)

Laurent Gautier ([e-mail])

See Also

Cdf-class

Examples

fn <- system.file("extdata", "Hu6800.CDF.gz", package="makecdfenv")
mycdf <- read.cdffile(fn, compress=TRUE)
mycdf

Example output

Loading required package: affyio
Cdf object:
cdfName= 3101_a0dim(name)=536x536 features
nb. affyid=7129

makecdfenv documentation built on Nov. 8, 2020, 8:03 p.m.