FSWE.scaleIntensities: FSWE.scaleIntensities

View source: R/fswe.scale_intensities.R

FSWE.scaleIntensitiesR Documentation

FSWE.scaleIntensities

Description

It scales FSWE-processed files to a common intensity scale defined by one software reference.

Usage

FSWE.scaleIntensities(working_dir = LFQbench.Config$DataRootFolder,
  fileModelingPattern = "_peptides", filesToModelPattern = ".[\\.].",
  filesNotToModelPattern = "FILE_I_DONT_WANT_TO_HAVE",
  softwareReference = "PeakView", softToModelMap = list(),
  softwareLabels = NULL, outputFileNameSuffix = NULL)

Arguments

working_dir

LFQbench-root directory with the subfolder input containing files processed by FSWE that you want to scale

fileModelingPattern

pattern for files you want to use for modeling

filesToModelPattern

pattern for files to apply the scaling models

softwareReference

software name for scaling reference

Details

Assumption: since we lose at this point the peak retention times, we will assume in this script that most of the peaks detected by different software tools match.


IFIproteomics/LFQbench documentation built on March 2, 2023, 9:45 a.m.