proteins_from_psms: Proteins from unique PSMs

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

Proteins from unique PSMs

Description

Generate protein-level abundance matrix from unique peptides from 'psm.tsv' file after selection of modified peptides by best PSMs.

Usage

proteins_from_psms(psms, annot)

Arguments

psms	Data frame. Optimally, the best PSMs obtained after processing the 'psm.tsv' with the function 'psmtsv_to_modified_peptides'.
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'.

Value

Data frame of summed protein intensities from unique modified peptides.

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