Dear @egelman,
Thank you for the feature request, and apologies for my delayed response. We will definitely look into generating power spectra using the described procedure, as this would be a great addition to aid helical symmetry determination. It would be fairly straightforward to add this as a standalone post-processing job after 2D classification. I believe another user (@adesfosses) has proposed a similar feature (Proposing a job type to add for helical processing).
In averaging power spectra this way, do you typically try to account for the CTF of the particles? It makes sense that it’s not crucial to account for the CTF when averaging the power spectra compared to the raw images, since only the amplitude of the raw images is used. However, I wonder if this matters when using the power spectra downstream for indexing purposes.
Best,
Michael