Hi, I stained the membrane structure of my cells. I hope to measure the ratio of fluorescence intensity of plasma membrane to that of intracellular compartments. I also want to know the number of intracellular compartments within the cell. Does anybody know how to do that? I just started using CellProfiler, so any help is welcome. Thanks!
Sorry for the slow response. I assume we hesitated in answering, because we needed more information to respond adequately. Have you solved this? If not, please post a sample image or two along with your attempted CellProfiler pipeline.