I have to establish the penetration profile of particles in tumour spheroids.
For this I have spheroids composed of cells which were exposed to particles, both of which are fluorescently labeled. The spheroids were then imaged using a confocal microscope by taking z-stacks of all spheroids. For analysis, I determined the intensity profile of each focal plane using an ImageJ plugin, namely "distribution_shapes".
What should be done next?
I currently did not find any step-by-step guide for this analysis for manual assessment and any type of help would be greatly appreciated.