writeAlleleSet: Write AlleleSetIllumina data to files

Description

Writes assayData, phenoData, and/or featureData of "AlleleSetIllumina" objects to text-files
Usage

writeAlleleSet(dataFiles, BSRed, append = TRUE, sep = "",
    quote = FALSE)
dataFiles{
    List with file-names (see makeFilenames). Only
    elements of BSRed indicated here are saved
  }
  BSRed{
    "AlleleSetIllumina" object
  }
  append{
    If TRUE, append data rather than overwrite files (see write.table)
  }
  sep{
    Field delimiter string (see write.table)
  }
  quote{
    If TRUE, character and factor columns are quoted (see write.table)
  }
The data-tables specified is written to text-files for subsequent
  loading using
  createAlleleSetFromFiles
  (or similar). The pre-processed data-files intFile,
  thFile, seFile, and phFile are used to estimate the
  result-files callFile, resFile, and
  genoFile. Subsequent overwriting of data-files may therefore
  invalidate result-file. Therefore, no data-files will be
  saved if result-files are saved in the same run.
This function is used for its side effects
[object Object]
The assayData-entries intensity, theta, and
  SE are written array-wise to file. This enables
  pre-processing of a subset of arrays at the time. The entries
  call and genotype are written marker-wise, which
  enables genotype-calling of a subset of markers at the time
Warning{
  Use with caution, as files will be overwritten without question if so specified
}
createAlleleSetFromFiles, makeFilenames,
  AlleleSetIllumina
#Create an AlleleSetIllumina object using files in example data directory
rPath <- system.file("extdata", package="beadarrayMSV")
normOpts <- list(transf='root',method='medianAF')
dataFiles <- makeFilenames('testdata',normOpts,rPath)
beadFile <- paste(rPath,'beadData_testdata.txt',sep='/')
beadInfo <- read.table(beadFile,sep='\t',header=TRUE,as.is=TRUE)
BSRed <- createAlleleSetFromFiles(dataFiles[1:4],beadInfo=beadInfo)
#Write some data to files
writeFiles <- makeFilenames('test2',normOpts,path='.')
writeAlleleSet(writeFiles[1:4],BSRed[1:10,1:5])
Description

Usage

Arguments
