import_MaxQuant: Import MaxQuant LF data

In biospi/deamass: Statistical modelling for mass spectrometry omics

Import MaxQuant LF data

Description

Reads in MaxQuant evidence.txt and proteinGroups.txt.

Usage

import_MaxQuant(
  proteinGroups.file = NULL,
  evidence.file = NULL,
  use.decoys = FALSE,
  use.shared.peptides = FALSE,
  use.only.identified.by.site = FALSE,
  use.potential.contaminant = FALSE,
  proteinGroups.data = NULL,
  evidence.data = NULL
)

Arguments

proteinGroups.file	Location of the proteinGroups.txt file.
evidence.file	Location of the evidence.txt file.
shared	Include shared peptides?
data	Advanced: Rather than specifying file, you can enter a data.frame preloaded with fread default parameters.

Value

A data.frame for input into bayesprot.

biospi/deamass documentation built on May 20, 2023, 3:30 a.m.