I have a question regarding symmetry expansion followed with re-extracting (sub)particles.
I am refining a helical filament that consists of one type of asymmetric unit. Now, I first used helical refinement and subsequently, then a symmetry expansion job, followed up with a local refinement, where I enter only the mask of the asymmetric unit to get a good resolution on the asymmetric unit.
However, now I would like to re-extract (sub)particles, where the asymmetric unit is in the center of the particle (toggle: re-extract aligned coordinates = on) , with a smaller box size then in my original particle stack. Basically so that I can turn my helical structure in a single particle approach.
When I re-extract, it looks like it re-extracts particles n times my asymmetric unit (as expected from the sym. expansion job) - but the locations seems incorrect. I expected the extracted particles to encircle the filament, instead they seem be located n x at the same spot.
Is this a valid workflow or did I misinterpret the function of the symmetry expansion?