A simple question regarding image processing

My knowledge regarding image processing is limited, so I ask here instead of risking making stupid mistakes.

I have a set of images of a fluorescent substance, taken in a dark room under illumination. The idea is to use this captured intensity to make tomographic reconstructions for the downward z-direction for each pixel in the image. The problem is that the images are grainy due to being taken in the dark, thus some pixels in the ROI (the white circle in the image below) are dark, and reconstruction with these pixels would yield unrealistic results.

So the question is: what is the most reasonable way to address the issue of the dark pixels?

Answer 1

[Matt J]

I see that some pixels are darker than others, but no pixels that are jet black. If you have some criterion to decide which pixels are defective, you can try to overpaint them with fillmissing2.

You could also try smoothing away the graininess with a median filter,

load Image

Im_smoothed = medfilt2(Im,[5,5]) ;

imagesc(Im_smoothed); colormap gray; axis off

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[Sebastian Daneli]

@Matt J, that looks much better. Thx.