I’m trying to use (I’m very new to ImageJ) the Intensity Ratio Nuclei Cytoplasm Tool for ImageJ to calculate the ratio between the nucleolus and the nucleus (which should work similarly to nuclei/cytoplasm). I have performed the AgNORs staining on my sections.
I am having troubles with the threshold for the “cytoplasm”(in my case the nucleus) as some "cytoplasms"are not included in the evaluation… Can somebody suggest a good setting under “s”(tab) that could help me include all my “cytoplasms”? Is there an option to see a ratio for every cell or the plugin only gives you a mean value?
I have attached a snap for you to have a look at (*hopefully it worked).