I am trying to identify cell shape using the IdentifySecondaryObjects module and create objects of it. I have two image files, one for cell nuclei (Hoechst) and one for cell shape (Texas Red). However, I find it very hard to find good settings in the IdentifySecondaryObjects module. The objects do not match the cell shape correctly, no matter how I change the settings. Identifying the nuclei in IdentifyPrimaryObjects is no problem.
Could you please give suggestions on settings I can try in the IdentifySecondaryObjects module? Or is there an image pre-processing module I should try prior to objects identification?
These are the settings that worked the best so far, but the result is still not satisfying yet.
And this is the output I get from it.