Argument items with no description in Rd file 'CV2AUCVC.Rd':
  ‘data’ ‘cvResolution’
Argument items with no description in Rd file 'calcFactorRLE.Rd':
  ‘data’ ‘p’
Argument items with no description in Rd file 'calcFactorUpperquartile.Rd':
  ‘data’ ‘lib.size’ ‘p’
Argument items with no description in Rd file 'calcFactorWeighted.Rd':
  ‘obs’ ‘ref’ ‘libsize.obs’ ‘libsize.ref’ ‘logratioTrim’ ‘sumTrim’
  ‘doWeighting’ ‘Acutoff’
Argument items with no description in Rd file 'change_colours.Rd':
  ‘p’ ‘palette’ ‘type’
Argument items with no description in Rd file 'estimateSizeFactorsForMatrix.Rd':
  ‘data’ ‘p’
Argument items with no description in Rd file 'filteredZero.Rd':
  ‘data’ ‘nonzeroRatio’
Argument items with no description in Rd file 'findGenes.Rd':
  ‘g’ ‘qlower’ ‘qupper’ ‘pre_ratio’
Argument items with no description in Rd file 'gatherCVs.Rd':
  ‘data’ ‘nonzeroRatio’ ‘HG7’ ‘ERCC’ ‘TN’ ‘TC’ ‘CR’ ‘NR’ ‘DESeq’ ‘UQ’
  ‘TMM’ ‘TU’ ‘GAPDH’ ‘cvNorm’ ‘cvResolution’
Argument items with no description in Rd file 'gatherCVs4Matrices.Rd':
  ‘\dots’ ‘raw_matrix’ ‘nonzeroRatio’ ‘cvNorm’ ‘cvResolution’
Argument items with no description in Rd file 'gatherCors.Rd':
  ‘data’ ‘cor_method’ ‘HG7’ ‘ERCC’ ‘TN’ ‘TC’ ‘CR’ ‘NR’ ‘DESeq’ ‘UQ’
  ‘TMM’ ‘TU’ ‘GAPDH’ ‘pre_ratio’ ‘lower_trim’ ‘upper_trim’ ‘rounds’
Argument items with no description in Rd file 'gatherCors4Matrices.Rd':
  ‘\dots’ ‘raw_matrix’ ‘cor_method’ ‘pre_ratio’ ‘lower_trim’
  ‘upper_trim’ ‘rounds’
Argument items with no description in Rd file 'gatherFactors.Rd':
  ‘data’ ‘methods’ ‘HG7.size’ ‘ERCC.size’ ‘TN.size’ ‘TC.size’ ‘CR.size’
  ‘NR.size’ ‘pre_ratio’ ‘lower_trim’ ‘upper_trim’ ‘min_ubq’
Argument items with no description in Rd file 'getAUCVC.Rd':
  ‘data’ ‘nonzeroRatio’ ‘cvNorm’ ‘cvResolution’
Argument items with no description in Rd file 'getAUCVCs.Rd':
  ‘\dots’ ‘nonzeroRatio’ ‘cvNorm’ ‘cvResolution’
Argument items with no description in Rd file 'getArea.Rd':
  ‘x’ ‘y’
Argument items with no description in Rd file 'getCV.Rd':
  ‘data’ ‘cvNorm’
Argument items with no description in Rd file 'getCor.Rd':
  ‘data’ ‘method’ ‘rounds’
Argument items with no description in Rd file 'getCorMedians.Rd':
  ‘data’
Argument items with no description in Rd file 'getFactors.Rd':
  ‘data’ ‘method’ ‘lib.size’ ‘pre_ratio’ ‘lower_trim’ ‘upper_trim’
  ‘min_ubq’
Argument items with no description in Rd file 'getNormMatrix.Rd':
  ‘data’ ‘norm.factors’
Argument items with no description in Rd file 'gridAUCVC.Rd':
  ‘data’ ‘dataType’ ‘HG7’ ‘ERCC’ ‘TN’ ‘TC’ ‘CR’ ‘NR’ ‘DESeq’ ‘UQ’ ‘TMM’
  ‘TU’ ‘GAPDH’ ‘nonzeroRatios’ ‘cvNorm’ ‘cvResolution’
Argument items with no description in Rd file 'gridAUCVC4Matrices.Rd':
  ‘\dots’ ‘nonzeroRatios’ ‘cvNorm’ ‘cvResolution’
Argument items with no description in Rd file 'identifyUbq.Rd':
  ‘data’ ‘pre_ratio’ ‘lower_trim’ ‘upper_trim’ ‘min_ubq’
Argument items with no description in Rd file 'identifyUbqRepeat.Rd':
  ‘data’ ‘pre_ratioC’ ‘lower_trimC’ ‘upper_trimC’
Argument items with no description in Rd file 'nonzeroRatio2AUCVC.Rd':
  ‘data’ ‘dataType’ ‘HG7’ ‘ERCC’ ‘TN’ ‘TC’ ‘CR’ ‘NR’ ‘DESeq’ ‘UQ’ ‘TMM’
  ‘TU’ ‘GAPDH’ ‘nonzeroRatio’ ‘cvNorm’ ‘cvResolution’
Argument items with no description in Rd file 'optTU.Rd':
  ‘data’ ‘nonzeroRatio’ ‘pre_ratio_range’ ‘prResolution’ ‘lower_range’
  ‘upper_range’ ‘qResolution’ ‘min_ubq’ ‘cvNorm’ ‘cvResolution’
Argument items with no description in Rd file 'plotCVs.Rd':
  ‘data’ ‘methods’ ‘legend.position’
Argument items with no description in Rd file 'plotCors.Rd':
  ‘data’ ‘methods’ ‘legend.position’
Argument items with no description in Rd file 'plotHC.Rd':
  ‘data’ ‘method’ ‘mar’