To obtain a spectral count, right click on a Dataset with merged Identification Summaries and select the “Compare with SC” menu in the popup.

In the Spectral Count window, fill the name and description of your Spectral Count and press Next.

Then select the Identification Summaries on which you want to perform the Spectral Count and press OK.

A Spectral Count window is opened with a label indicating that the calculation is being done, and the Spectral Count is added to the Quantitation Panel.