I’ve used the BigWarp plugin on FIJI in order to align 2 images of tissue, before and after being subjected to damage. I would like to examine the % tissue area that is lost from the before image in the after image after the composite has been generated in BigWarp.
I have nice looking BigWarp composites, but can’t figure out how to determine the area lost in the after image with reference to the before image (tissue 1 vs. tissue 2, not just tissue 1+2 vs. background). I have tried selecting the area with a tool and Analyze --> Measure but this seems to only give me the % Area of the signal from the tissue vs. the blank space.
Any help would be greatly appreciated!