BufferedMatrix.justRMA {BufferedMatrixMethods}R Documentation

Use BufferedMatrix objects to facilitate RMA computation with low memory overhead

Description

Read CEL data into BufferedMatrix objects.

Usage

BufferedMatrix.justRMA(..., filenames=character(0),celfile.path=NULL,
                     phenoData=new("AnnotatedDataFrame"),
                     description=NULL,
                     notes="",
                     verbose=FALSE, background=TRUE, normalize=TRUE,
                     cdfname = NULL)

Arguments

... file names separated by comma.
filenames file names in a character vector.
celfile.path path where CEL files are located
phenoData a AnnotatedDataFrame object
description a MIAME object
notes notes
verbose verbosity flag
normalize logical value. If TRUE normalize data using quantile normalization
background logical value. If TRUE background correct using RMA background correction
cdfname Used to specify the name of an alternative cdf package. If set to NULL, the usual cdf package based on Affymetrix' mappings will be used.

Value

An ExpressionSet object, containing expression values identical to what one would get from running rma on an AffyBatch.

Author(s)

Ben Bolstad bmb@bmbolstad.com

See Also

BufferedMatrix, BufferedMatrix.read.probematrix


[Package BufferedMatrixMethods version 1.8.0 Index]