peptide2protein_normalization: Normalize peptide abundance by protein abundance

In MiguelCos/fragNterminomics: Annotation and processing of peptides from FragPipe search results

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.