make.calibration.lib: Create a calibration library in OpenSwath format (TSV)

In MarcIsak/MSLibrarian: What the Package Does (One Line, Title Case)

Create a calibration library in OpenSwath format (TSV)

Description

Create a calibration library in OpenSwath format (TSV)

Usage

make.calibration.lib(
  spectrastPath,
  oswGenPath,
  prophetFile,
  libType,
  irt,
  spectrastParams,
  output
)

Arguments

spectrastPath	absolute path to the Trans-proteomic pipeline binary folder
oswGenPath	absolute path to the OpenMS binary folder
prophetFile	absolute path to the iProphet results file
libType	Type of spectral library to build. Possible values are 1) 'Consensus' and 2) 'Best replicate'"
irt	input file with irt values associated to every peptide sequence
spectrastParams	input Spectrast parameters file
output	Desired output file name of OpenSwath library

MarcIsak/MSLibrarian documentation built on Aug. 27, 2022, 4:55 a.m.