So I have around 1.5k images I am analysing in ImageJ. I am counting stained cells in colonic mucosa stained with IHC. My “green” stain I was counting by selecting a target area, thresholding then using analyse particles to count the number of stained cells. This seems to work well enough.
The issue is the “area” output in analyse particle. I assumed this was the total area within the thresholded and selected area. But I actually think this is the area of the number of counted cells. I.e. there are 2 cells that make up 100 pixel instead of ther are 2 cells in a 100 pixel area.
First of all is this true?
Second of all is there any way I can salvage this without having to go back through the hundreds of images I have already analysed and redoing the area calculation?
thanks for your help