BM_affyDataInput: Read CEL file data into PM or MM BufferedMatrix

In BufferedMatrixMethods: Microarray Data related methods that utlize BufferedMatrix objects

Description

Read CEL data into BufferedMatrix objects.

Usage

BufferedMatrix.read.probematrix(..., filenames = character(0),celfile.path=NULL,rm.mask = FALSE, rm.outliers = FALSE, rm.extra = FALSE, verbose = FALSE,which="pm",cdfname = NULL)

Arguments

...	file names separated by comma.
filenames	file names in a character vector.
celfile.path	path where CEL files are located
rm.mask	should the spots marked as 'MASKS' set to NA ?
rm.outliers	should the spots marked as 'OUTLIERS' set to NA
rm.extra	if TRUE, overrides what is in rm.mask and rm.oultiers
verbose	verbosity flag
which	should be either "pm", "mm" or "both"
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

A list of one or two BufferedMatrix objects. Each BufferedMatrix objects is either PM or MM data. No AffyBatch is created.

Author(s)

Ben Bolstad [e-mail]

See Also

AffyBatch, read.affybatch

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