Nuclei, cytoplasm and cell counting


I have been trying to analyse my image which contains 3 channel (red green blue) Red contains principle cell, and blue contains DAPI nuclei. Green channel is distributed in both in and outside of the blue.
I would like to count the number of cells, number of nuclei. I would also want to measure the intensity inside and outside of the nuclei. I found cell profiler might be the best option. Any suggestion would be highly appreciated.
Thanks in advance.

kind regards
Queensland Brain Institute
The University of Queensland.



Allow me to point you to our tutorials and example pipelines to get you started (I think the “human cells” example is a great place to start for the question you described!). Once you’ve started working on a pipeline, if you continue to have questions please feel free to post your work so far and we’ll try to help you troubleshoot particular issues.

Best of luck!