I generated an initial model for an icosahedral virus following the scheme outlined in the 2016 Frealign paper. It's working great so far, but I have some general questions on strategy. After 16 cycles of MODE 3, and with a 30 A resolution limit, my FSC now extends beyond 10 A. Do you recommend switching to MODE 1, or should I continue to increase the resolution limits while in MODE 3?
I'm also unclear of how to approach classification. I currently have 95% occ in one of my three classes. Do you recommend seeding my next cycles with this reconstruction as I increase resolution limits? How do you decide when to seed?
Thanks for your help,