I’m new to ImageJ, so any help would be appreciated! I have 3 channels of 1 sample. The first channel is stained for the nuclei, the second channel is stained for the mRNA spots, and the third is a stain for a specific protein (not relevant for this question).
I want to assign the mRNA spots to the closest cell. I know that I can count the mRNA spots within a nucleus using “Analyze Particles” feature of ImageJ, but I wish to assign mRNA that is outside of this nucleus to the cell and count that as well.
Any idea of how to do this?