stack equalization

[Knecht, David]

I have a stack of images with similar very histogram profiles, but because of the camera varying slightly in exposures, they are shifted slightly left or right.  As a result, when played as a series, there is an annoying flicker.  I was trying to use the Process/Enhance contrast command to set all the histograms the same to remove the flicker, but no settings I tried generated a series of images that did not flicker due to different histograms.  What is the best way to do this?  Thanks- Dave
 
Dr. David Knecht
Professor of Molecular and Cell Biology
Core Microscopy Facility Director
University of Connecticut
Storrs, CT 06269
860-486-2200

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[lechristophe]

Hi David,

If you use Fiji, you can try the Bleach Correction plugin which has three
different methods to compensate for variations along a time-lapse:
http://fiji.sc/Bleach_Correction
The last method (Histogram matching) seems to be quite refined.

Hope this helps,

Christophe


2014-07-29 16:29 GMT+02:00 Knecht, David <[hidden email]>:

> I have a stack of images with similar very histogram profiles, but because
> of the camera varying slightly in exposures, they are shifted slightly left
> or right.  As a result, when played as a series, there is an annoying
> flicker.  I was trying to use the Process/Enhance contrast command to set
> all the histograms the same to remove the flicker, but no settings I tried
> generated a series of images that did not flicker due to different
> histograms.  What is the best way to do this?  Thanks- Dave
>
> Dr. David Knecht
> Professor of Molecular and Cell Biology
> Core Microscopy Facility Director
> University of Connecticut
> Storrs, CT 06269
> 860-486-2200
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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[Mark Krebs-2]

Hi David,

How about the Stack Deflicker plugin:

http://www.phage.dk/plugins/deflicker.html

Cheers,
Mark Krebs
The Jackson Laboratory
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