There is still a problem with the positions of the functional cells. Do you make sure that everything is in the same coordinate system? For example, do you scale your stacks by 0.8x0.8x2? It is very very important to cross-check this, also with all the brain region positions. Do all masks perfectly overlap with the stacks?
There is still a problem with the positions of the functional cells. Do you make sure that everything is in the same coordinate system? For example, do you scale your stacks by 0.8x0.8x2? It is very very important to cross-check this, also with all the brain region positions. Do all masks perfectly overlap with the stacks?