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planemo upload for repository https://github.com/kpbioteam/minfi_ppquantile commit 93ac44e4428f7560ef032adcf5749ada58d15f57-dirty
author kpbioteam
date Sun, 11 Feb 2018 07:35:45 -0500
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require("minfi", quietly = TRUE)

args <- commandArgs(trailingOnly = TRUE)

input = args[1]
output = args[2]

RGSet <- get(load(input))

GRSet <- preprocessQuantile(RGSet, fixOutliers = TRUE,
  removeBadSamples = TRUE, badSampleCutoff = 10.5,
  quantileNormalize = TRUE, stratified = TRUE, 
  mergeManifest = FALSE, sex = NULL)

save(GRSet,file = output)