inst/testScripts/complete/dataSets/GSE20584/01a.downloadAnnotationData.R

In HenrikBengtsson/aroma.affymetrix: Analysis of Large Affymetrix Microarray Data Sets

library("aroma.core")
verbose <- Arguments$getVerbose(-8, timestamp=TRUE)
ar <- AromaRepository(verbose=TRUE)

verbose && enter(verbose, "Downloading annotation data")

chipType <- "GenomeWideSNP_6"
tags <- "Full"
verbose && cat(verbose, "Chip type: ", chipType)

pathname <- downloadACS(ar, chipType, tags=".*")
verbose && cat(verbose, "ACS: ", pathname)

pathname <- downloadCDF(ar, chipType, tags=tags)
verbose && cat(verbose, "CDF: ", pathname)

pathname <- downloadUGP(ar, chipType, tags=c(tags, "na31,hg19", ".*"))
verbose && cat(verbose, "UGP: ", pathname)

pathname <- downloadUFL(ar, chipType, tags=c(tags, "na31,hg19", ".*"))
verbose && cat(verbose, "UFL: ", pathname)

verbose && exit(verbose)