I have some trouble in analyzing negative stain micrographs.
I manually picked ~1000 particles for 2D classification. But when I tried to use the selected 2D classes for template picking, it seems like Cryosparc picked the dark background instead of the white particles. I know this is how it works for autopicking particles from Cryo-images in which the particle is black. But is there any solution for the negative stain?
When I tried to use the generated .mrc file to serve as a template for autopicking in relion, it seems like I need to convert the .mrc to .mrcs. How could I achieve that?
Where can I find the information about the pixel size of the generated .mrc file by cryoSPARC?