Hi all, I’m fairly new to ImageJ and what I want to do is very simple (in theory at least).
I want to create a mask from a binary image from one channel, overlay it onto another channel, and count nuclei that are only inside the mask. Seems simple, but I can’t get it to work. I will attach the two images. I know how to use particle analyzer to count the cells, but not how to create the mask and overlay it onto another image to only count nuceli within the mask. Any tips/ideas?
The red image is what will be used to make the threshold (the bright red areas are the areas I want to only count nuclei in).