BM_affyDataInput: Read CEL file data into PM or MM BufferedMatrix

Description Usage Arguments Value Author(s) See Also

Description

Read CEL data into BufferedMatrix objects.

Usage

1
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 [email protected]

See Also

AffyBatch, read.affybatch


BufferedMatrixMethods documentation built on Nov. 1, 2018, 2:08 a.m.