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[Paul Grimm]

I am very sorry to bother you with a simple question.

I have done a lot of work with NIH Image previously. I am now  
considering upgrading to Image J, new cameras and equipment etc.

I have a simple question, is there any plugin or macro that would  
allow me to script or automate colour flatfield correction?
I will acquire 100's of RGB images a day and plan to control the  
camera I buy with an IMAGEJ plugin. (Q imaging camera)

I need to be able to automatically correct illumination problems by  
subtracting a background image to speed things tremendously.
The plug in "Background Subtraction and Image Normalization Author:  
Jeffrey Kuhn" is for grayscale images

and the plug in "Shading Corrector" that comes with the ImageJ  
installation "only works with 8-bit images" which I assume means 8-
bit grayscale.

If there is no scriptable solution I may need to buy a more expensive  
camera (SPOT Insight) which comes with a scriptable software

Any thoughts, advice, razzberries gratefully accepted

Thank you in advance

------

Paul C. Grimm
Professor of Clinical Pediatrics
Pediatric Nephrology
University of California at San Diego

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La Jolla California
92093-0831

In research, the present devours the past. Sir Peter Medawar

[Gabriel Landini]

On Wednesday 16 November 2005 21:28, Paul Grimm wrote:
> I have a simple question, is there any plugin or macro that would
> allow me to script or automate colour flatfield correction?
> I will acquire 100's of RGB images a day and plan to control the
> camera I buy with an IMAGEJ plugin. (Q imaging camera)

Yes, this can be done in a macro, here is the description of the procedure

https://list.nih.gov/cgi-bin/wa?A2=ind0409&L=IMAGEJ&P=R2206&I=-3

To do this, you need intermediate results as 32 bit, or (more convenient) you
can use the Calculator_Plus plugin which allows to do the division and
multiplication in one step without having to convert to 32 bits.

If you are doing this with many images, make sure that there are no light
condition changes between the different shots so you can re-use the dark- and
brightfiled images

Cheers,

Gabriel