The PSM validation tool verifies PSM scans against the ion fragmentation of the associated peptide squence.
- MZSQLite database generated in a Galaxy workflow
- Tabular file of peptide sequences
By default the tool will fragment peptde into
- b and y ions
- b-H2O, b-NH3, y-H2O, y-NH3
- Internals
You can disable internals and neutral loss ions.
A self-contained HTML report that includes:
- All PSMs for peptides of interest with PSM identifiers
- PSM PeptideShaker scores are presented
- MSMS interactive graphs with
- PSM scan mz and intensities
- All matching ion fragments
- Ion fragment table
- Color coded for matching fragments
- Internal values and color coded for internal matches