Hi, I’m hoping someone can help with this - I’ve hit a roadblock in my analysis workflow.
I’m trying to measure staining around blood vessels (the black holes) in terminal villi (round objects) in placental tissue. I can successfully detect the villi I want (based on tissue detection and size of object) and I can detect the vessels within them. But now I need to only keep those vessels that are close to circular (ie: exclude the ones indicated by the arrows in the image) and I’ve hit a road block. I effectively want to do something along the lines of Analyse Particles in ImageJ and keep only those over a particular circularity.
I’m used to coding ImageJ macros but am new to Java/Groovy so would appreciate some pointers. How do I access circularily measurements (or area and perimeter so I can calculate it myself)? I’ve managed to get Area measurements within a script but not perimeter. At the moment I have the blood vessels as detections but could just as easily have made them annotations if that makes the scripting easier.