I have acquired a 4Å structure of my protein using 70k particles, which I am trying to further improve. The problem is that all the downstream jobs have been performed on (F=1/2) cropped micrographs. As a result, I am trying to re-extract my good particles from the original non-cropped micrographs to have a chance of getting better resolution in my structure. However, cryosparc no longer detects them and all extraction jobs give me zero particles.
I suppose that when using as input particles found in F=1/2 micrographs, and micrographs with F=1 the coordinates are different.
Is there any way to re-extract my good particles from the non-cropped micrographs without having to go through all particle picking steps again?
Prior to re-extraction, you need to also Reassign Particles to Micrographs in order to associate your particle stack with the new source micrographs. I believe nominal particle coordinates are stored as fractions of the micrograph dimensions, so should be agnostic to downsampling.
@Panoskre What job type did you use to perform the cropping? Was there a common Import Movies job for the cropped and non-cropped forks of your workflow?
For both cropped and non-cropped micrographs I used the import movies job, one with F=1/2 one with F=1.
But after running the reassign particles to micrographs job extraction works : ).