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@ALuesink ALuesink commented Nov 24, 2025

Previously commandArgs was used to extract command line arguments, however, this method is prone to errors because it uses indices to get the correct arguments. In this feature all commandArgs are substituted by argparse. See DIMS PR 119

Pipeline steps:

  • AssignToBins
  • AverageTechReplicates
  • CollectFilled
  • CollectSumAdducts
  • FillMissing
  • GenerateBreaks
  • GenerateExcel
  • GenerateQCOutput
  • GenerateViolinPlots
  • HMDBparts_main
  • HMDBparts
  • MakeInit
  • PeakFinding
  • PeakGrouping
  • SpectrumPeakFinding
  • SumAdducts

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2 participants