We describe an image processing system which we have developed to align autofluorescence and high-magnification images taken with a laser scanning ophthalmoscope. The low signal to noise ratio of these images makes pattern recognition a non-trivial task. However, once n images are aligned and averaged, the noise levels drop by a factor of √n and the image quality is improved. We include examples of autofluorescence images and images of the cone photoreceptor mosaic obtained using this system.
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