OpenMS
Loading...
Searching...
No Matches
ProteinInference

Computes a protein identification score based on an aggregation of scores of identified peptides.

pot. predecessor tools → ProteinInterference → pot. successor tools
CometAdapter (or other ID engines) PeptideIndexer
FalseDiscoveryRate
IDFilter

This tool counts and aggregates the scores of peptide sequences that match a protein accession. Only the top PSM for a peptide is used. By default it also annotates the number of peptides used for the calculation (metavalue "nr_found_peptides") and can be used for further filtering. 0 probability peptides are counted but ignored in aggregation method "multiplication".

Note
Currently mzIdentML (mzid) is not directly supported as an input/output format of this tool. Convert mzid files to/from idXML using IDFileConverter if necessary.
Todo:
possibly integrate parsimony approach from OpenMS::PSProteinInference class The command line parameters of this tool are:
 INI file documentation of this tool: