The Metrics that Describe the MS2 Level of Ionization:
- Peaks per Spectrum is the number of fragment ion peaks in the MS2 spectrum.
- High-intensity ID Rate is the percentage of the more intense MS1 peaks that get identified as a peptide.
- Low-intensity ID Rate is the percentage of the least intense MS1 peaks that get identified as a peptide.
- Signal to Noise estimates how strong the signal is, that is how much larger the large peaks in the spectrum compared to the the background noise.
- Ion Inject Time is the time in milliseconds that it takes to fill the ion trap.
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