I have optimised my pipeline for nuclei (long time ago), but still constantly refining the process of identification. I think I’ve come to a point where i’m just wanting to exlude certain cells/nuclei that won’t give accurate results.
For example, sometimes CP outlines a nuclei, but splits it in half. So in fact to the human eye, the nuclei is very round, but because of different intensity levels, CP splits it in half. So you have a semi circle with one completely flat side.
How do i go about exluding this certain outline and those that just seem like a very random shape?
I have tried the measureobjectareashape and filterbyobjectmeasurement
what parameters do I need to set?
thanks in advance