update_protein_mapping_from_maxquant: Update the peptide-to-protein mappings using a MaxQuant...

In ftwkoopmans/msdap: Mass Spectrometry Downstream Analysis Pipeline

Update the peptide-to-protein mappings using a MaxQuant search result

Description

Simple wrapper function for user convenience; read MaxQuant proteinsgroups using import_maxquant_proteingroups(), then update the peptide-to-protein mappings in the peptide data table update_protein_mapping()

Usage

update_protein_mapping_from_maxquant(
  dataset,
  path_maxquant,
  remove_shared = TRUE
)

Arguments

dataset	your dataset
path_maxquant	full path to MaxQuant output ('txt') folder
remove_shared	remove all shared peptides that could not be assigned to a single proteingroup as a unique- or razor-peptide ?

ftwkoopmans/msdap documentation built on March 5, 2025, 12:15 a.m.