Hi, when importing raw particles (Import Particle Stack job) from relion into v. 2.4.0, if I select that these raw particles are “dark-on-light” as it should be for cryo-data, then 2D classes in cryosparc look also “dark-on-light”, inverted to normal situation. If I leave cryosparc default parameter that particles are “light-on-dark” (as it should be only for negative stain in principle) then 2D classes look normal, light density on dark background. So the description of the input parameter seems to be inverted, or am I missing something?
Thanks,
Leonid
Probably you already inverted the particles when extracting in Relion - this is the default.