I was wondering if all the cellprofiler experts in the forums might be able to help our research group with some automated cell counting. Our group studies optic nerve regeneration here in Boston and we have been trying for some time to streamline our cell counting efforts, which at this point takes up a great deal of time. We are interested in counting the number of cell bodies that are stained, the difficulty we have had is that the number of axons makes basic automated cell counting a problem. For example, in the attached image we are interested in the total number of green and red cell bodies. but as you can see the green axons obfuscate the image. In your collective opinion, do you think cellprofiler is capable of analyzing such an image for cell bodies?
Thanks so much!