Re: Non-uniform illumination and noise reduction

Posted by R Wade Schuette on Aug 25, 2005; 9:25pm
URL: http://imagej.273.s1.nabble.com/Non-uniform-illumination-and-noise-reduction-tp3704964p3704970.html

I'm not sure what your images look like, but you might be able to
compute a minimum or maximum pixel-value across the stack for each
pixel, then truncate or smooth that to get a "standard background".

Wade


On Thu, 25 Aug 2005, Michael Chelen wrote:

> Hello,
> I'm trying to analyze some calcium dye fluorescence images. The
> illuminating field appears to be non-uniform, and I'm looking for a
> good way to calculate and remove the background illumination. So far,
> I've tried both the built-in "Subtract Background" command (Process ->
> Subtract Background) and the plugin "Background Correction"
> (http://rsb.info.nih.gov/ij/plugins/background.html). These both to
> seem to work reasonably well, but the second does not work for a
> multiframe image. I was wondering if anyone had any experience with
> these two tools, and if they could provide any insight into how these
> tools work, and if there are others I should be considering.
>
> Because the image set is a 500 frame t-series, it seems like the best
> algorithm would be one that uses the data from every frame to
> calculate the best possible approximation of the illuminating field.
> Additionally, such a utility could identify likely points of noise
> because the noise will change much more rapidly (from frame to frame)
> than the actual signal. Is there anything like this for ImageJ that
> anyone can recommend? I would really appreciate any suggestions or
> insight.
>
> Thanks,
> Michael Chelen
>
>
>