BM_justRMA: Use BufferedMatrix objects to facilitate RMA computation with...

In BufferedMatrixMethods: Microarray Data related methods that utlize BufferedMatrix objects

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 [e-mail]

See Also

BufferedMatrix, BufferedMatrix.read.probematrix

BufferedMatrixMethods documentation built on Nov. 8, 2020, 8:22 p.m.