Skip filtering?

[braulio09]

Hi, I am new to using FISH-Quant but it seems very promising. One issue I am having with my data is that the images are already highly processed to reduce background as they are confocal airyscan images.

I noticed that filtered images highly reduced the differences in values between background and spot. A spot would go from 255 to 40 despite the background being only 4 in that 255 scale. More importatly, any filtering results in spots becoming rings (see below) because the centre is dimmed more. This also means that in big rings, multiple spots will be detected.

Is there a way I can just skip filtering the image and go to thresholding?

Thank you

Raw image

Filtered (sigma = 2 was the best I could get without FISH-Quant getting stuck)