I’m looking to count speckles in my cells. The speckles are quite small - about 5 pixels in diameter and the thresholding I’m using seems to recognize many negative areas, without recognizing the actual speckles. I’ve played around quite a lot with the thresholding (as some of the forum suggested) and such but haven’t had any success with identifying them.
I was wondering if there was a thresholding that someone could recommend or perhaps a mask that would work for this case.
Counting PBs pipeline.cppipe (16.0 KB)
Here’s an example of the files - I define the cells and nuclei with the blue file and count the speckles with the green file.