fragpipe_parse_psm: Parse a FragPipe psm.tsv table

In ftwkoopmans/msdap: Mass Spectrometry Downstream Analysis Pipeline

Parse a FragPipe psm.tsv table

Description

Parse a FragPipe psm.tsv table

Usage

fragpipe_parse_psm(filename, precursor_unique_results = "fast_min_confidence")

Arguments

filename

full path to a FragPipe psm.tsv file

precursor_unique_results

how to deal with duplicate peptide_id*sample_id entries. fast_min_confidence = just return min confidence (default: fast, but note that this ignores intensity values altogether) min_confidence_max_intensity find the local minimum/maximum of respective values (pretty fast, bit slower than first option) min_confidence_sum_intensity find the local minimum for confidence, summarize the intensities (slow)

ftwkoopmans/msdap documentation built on March 5, 2025, 12:15 a.m.