addData-methods: Import additional CEL files into a DataTreeSet

In xps: Processing and Analysis of Affymetrix Oligonucleotide Arrays including Exon Arrays, Whole Genome Arrays and Plate Arrays

Description

Import additional CEL files into a DataTreeSet and update ROOT data file.

Usage

addData(object, celdir = NULL, celfiles = "", celnames = NULL, project = NULL, verbose = TRUE)

Arguments

object	object of class DataTreeSet.
celdir	system directory containing the CEL-files for corresponding scheme.
celfiles	optional vector of CEL-files to be imported.
celnames	optional vector of names which should replace the CEL-file names.
project	optional class ProjectInfo.
verbose	logical, if TRUE print status information.

Details

Import additional CEL-files and update ROOT data file rootfile.

To import CEL-files from different directories, vector celfiles must contain the full path for each CEL-file and celdir must be celdir=NULL.

Value

A DataTreeSet object.

Author(s)

Christian Stratowa

See Also

import.data, root.data

Examples

## get scheme and import subset of CEL-files from package
scheme.test3 <- root.scheme(paste(path.package("xps"),"schemes/SchemeTest3.root",sep="/"))
data.test3 <- import.data(scheme.test3,"tmp_test3",celdir=paste(path.package("xps"),"raw",sep="/"),
              celfiles=c("TestA1.CEL","TestB2.CEL"),verbose=FALSE)

unlist(treeNames(data.test3))

## add further subset of CEL-files
data.test3 <- addData(data.test3,celdir=paste(path.package("xps"),"raw",sep="/"),
              celfiles=c("TestA2.CEL","TestB1.CEL"),verbose=FALSE)

unlist(treeNames(data.test3))

xps documentation built on Nov. 8, 2020, 6 p.m.