Re: normalize part of image according to another part

Posted by gankaku on Apr 24, 2014; 5:51pm
URL: http://imagej.273.s1.nabble.com/normalize-part-of-image-according-to-another-part-tp5007413p5007418.html

Hi Vojta,

You might want to try a pseudo flat-field correction (
http://fiji.sc/BioVoxxel_Toolbox#Flat-field_and_Pseudo_flat-field_correction
).
If you are not using Fiji but ImageJ you can separately download the
toolbox from

http://www.biovoxxel.de/BioVoxxel%20Macro%20Toolset/BioVoxxel_Toolbox.ijm

and save it in the macros\toolset folder and select it from the >> icon.

this might not work perfectly at the transition between the bright and the
dark region but will make the different intensities more equal.

regards,
Jan



2014-04-24 12:50 GMT+02:00 Vojtas <[hidden email]>:

> Dear all,
>
> I have a scanned 16 bit grayscale image that has an artifact - part of the
> image has lower dynamic range of pixel intensity. I would like to adjust
> the
> range of pixel intensity according to a selected part of the image and
> preserve the "healthy" part of the image.
>
> I am not satisfied with histogram normalization/equalization. I kind of
> like
> a plugin Quantile Based Normalization (Fiji), -
> http://www.longair.net/edinburgh/imagej/quantile-normalization/
> but I couldn't make it work the way I wanted. I was not able to apply
> successfully the mask for the selected part of image. Also, when I tried
> the
> plugin on two testing images, I ended up with two processed images both
> with
> changed pixel intensity. I wonder if there is a way how to mark one image
> as
> "source" of pixel intensity histogram.
>
> Any suggestions how to either make the Quantile Based Normalization work or
> to adjust the histogram of one part image according to another?
>
> Vojta
>
> "healthy" image part:
> <http://imagej.1557.x6.nabble.com/file/n5007413/area.gif>
>
>
>
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>
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