peptide2protein_normalization: Normalize peptide abundance by protein abundance

View source: R/normalize_peptide_abund_by_protein_abund.R

peptide2protein_normalizationR Documentation

Normalize peptide abundance by protein abundance

Description

Takes information of protein intensity and peptide intensity and perform normalization of peptide abundance based on protein abundance.

Usage

peptide2protein_normalization(
  peptides,
  annot,
  peptide_annot,
  summarize_by_specificity = TRUE
)

Arguments

peptides

Data frame of peptide intensities that will be normalized by protein abundance. Typically gotten from the 'purify_n_normalize' function.

annot

Data frame obtained from loading the 'annotation.txt' from Fragpipe output. First column should be named 'channel' and second column should be named 'sample'.

peptide_annot

peptide annotation with specificity information. As it comes from merging the outputs from the functions 'annotate_peptides' and 'psmtsv_to_modified_peptides'

Value

List with four elements:


MiguelCos/fragNterminomics documentation built on Oct. 13, 2023, 5:31 a.m.