I’m trying to count fluorescent cells in various parts of the hippocampus, but I have some problems with differentiating between neurons and dendrites. I am interested in the number of fluorescent neurons that are present, but my CellProfiler pipeline also detects some dendrites (which were also a bit labeled by the fluorescent marker that I used) and I can’t seem to get rid of these.
Can anybody help me with this? Attached are both one of the images I am trying to analyse, as well as the pipeline I am currently using.
With kind regards,