BufferedMatrixMethods (version 1.36.0)

BufferedMatrix.justRMA: 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.

See Also

BufferedMatrix, BufferedMatrix.read.probematrix