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Help counting cells in micrographs?

Hi. I need to count cells in images and there are a lot of cells in a lot of images to count. The images come in pairs and I have to count an area (usually the upper left hand corner of the image and then count the number of bright yellow ones in the corresponding image. I usually do this by putting block dots on the images in the GIMP (GNU image manipulation program - like Photoshop but free and not quite as powerful) and using an app on my phone to count. The black dots stop me from counting the same cells twice. I'd like a way to do this on my touch screen tablet because it would be a lot faster than moving the mouse around. Is there a way I can put black dots on these images (preferably on an invisible layer that I can switch on and off) that will also count the number of times I press/place a dot?




 
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