writeCleanedCountsFile: writeCleanedCountsFiles

In RAPIDR: Reliable Accurate Prenatal non-Invasive Diagnosis R package

Description

This function takes a binned.counts.file and applies GC correction or PCA correction and writes out the resulting binned counts as a a new file

Usage

writeCleanedCountsFile(binned.counts.file, cleaned.binned.counts.fname,
  gcContentFile, gcCorrect = FALSE, PCA = FALSE)

Arguments

binned.counts.file	file name of the binned counts. The binned counts file should be comma delimited, and the first line need to be the chromosome names of each bin
cleaned.binned.counts.fname	file name to write to for the corrected binned counts, default is not to write to file
gcContentFile	file name of a Rdata object with the gcContent data
gcCorrect	whether to do gc correction or not (True = do the correction)
PCA	whether to do PCA correction or not (True = do the correction)

RAPIDR documentation built on May 1, 2019, 8:18 p.m.