readOrLoad.RawData: readOrLoad.RawData

In uebvhir/BasicP4microArrays: Functions to create and run simple-to-complex microarray analysis pipeline

Description

Function that reads the raw data or if the eset is already created it is loaded.

Usage

readOrLoad.RawData(readCELS, phenoDat, fileNames, dataFName, outputDir,
  exonSt = FALSE, cdf = NULL)

Arguments

readCELS	If TRUE it reads and stores de novo the raw data.
phenoDat	Name of the file that contains phenodata information.
fileNames	List of the file names to import.
dataFName	Name of the file that stores raw data.
outputDir	Path where the my.raw will be stored.
exonSt	Default value FALSE. If TRUE the raw data is exon array.
cdf	name of "cel definition file" package

Value

my.raw expresion set object with the raw data.

Examples

## Not run: 
require(affy)
require(oligo) #ExonStudy
readCELS <- TRUE
my.targets <- "./celfiles/targets.txt"
targets<- read.table("./celfiles/targets.txt", head=TRUE, sep="\t", row.names = 1)
my.fileNames <-paste("./celfiles/",rownames(targets),sep="")
rawDataFileName <- "rawData.Rda"
my.outputDir <- "."
isExonStudy <- FALSE
orgPackage <- "org.Hs.eg"

rawData <- readOrLoad.RawData(readCELS = readCELS, phenoDat = my.targets,
fileNames = my.fileNames, dataFName =rawDataFileName,outputDir = my.outputDir,
exonSt = isExonStudy)
## End(Not run)

uebvhir/BasicP4microArrays documentation built on Nov. 5, 2019, 11:03 a.m.