I am trying to count cells and messure the area of the cells and clusters with Fiji. I have a stack of pictures and they all look similar to this one:
I already solved the light gradient problem with the Bandpass Filter and now I am stucked trying thresholding. I tryed a couple different filters and thresholding methods. The best result I got was with substract Background and then using otsu threshold. Then it looked like this:
Does anyone knows a better method, where I would not loose the structure and the Area of the cells?
Thanks a lot.