import_ProteomeDiscoverer: Import Thermo ProteomeDiscoverer data

In biospi/deamass: Statistical modelling for mass spectrometry omics

Description

Reads in a Thermo ProteomeDiscoverer PSMs.txt file.

Usage

import_ProteomeDiscoverer(
  file = NULL,
  use.shared.peptides = FALSE,
  use.not.unique = TRUE,
  use.excluded.by.method = TRUE,
  use.redundant = FALSE,
  data = NULL,
  as.data.table = F
)

Arguments

file	Location of the PSMs.txt file.
data	Advanced: Rather than specifying file, you can enter a data.frame preloaded with fread default parameters.
shared	Include shared peptides?
used	Include only measurements marked as used by ProteomeDiscoverer?

Value

A data.frame for input into seaMass_sigma.

biospi/deamass documentation built on Nov. 25, 2021, 1:18 p.m.