add_msgf_pepseqmod: Adds the 'pep_seq_mod' field to PSMs.

In qzhang503/proteoQ: Processing and Informatic Analysis of Mass Spectrometrirc Data

Adds the pep_seq_mod field to PSMs.

Description

For MSGF.

Usage

add_msgf_pepseqmod(
  df = NULL,
  use_lowercase_aa = TRUE,
  purge_phosphodata = FALSE
)

Arguments

df	PSM data.
use_lowercase_aa	Logical; if TRUE, modifications in amino acid residues will be abbreviated with lower-case and/or ^_~. See the table below for details. The default is TRUE.
purge_phosphodata	Logical; if TRUE and phosphorylation present as variable modification(s), entries without phosphorylation will be removed. The default is TRUE.

qzhang503/proteoQ documentation built on Feb. 27, 2025, 8:34 a.m.