ProteinPilot™ Software 5.0: What Are the Criteria for Including a Peptide in the Feature Tab?

For research use only. Not for use in diagnostic procedures.

Answer

1. All modifications must be a biological modification to be considered.
2. The minimum protein confidence filter default must be set to an Unused score of 0.47.
3. The minimum peptide confidence filter default must be set to 0.66 (66% confidence).