Posted by
Daniel James White on
Jun 16, 2010; 7:57am
URL: http://imagej.273.s1.nabble.com/Need-trouble-shooting-advice-for-deconvolution-tp3687551p3687555.html
Hi Dave and Piotr,
On Jun 16, 2010, at 6:01 AM, IMAGEJ automatic digest system wrote:
>>>
>>> I always center the best focal
>>> plane of the bead within the stack used for deconv (presuming that is be=
> st).
>>
>> the PSF must be exactly centered!!!!
>> In X Y and Z or else you will generate garbage.
>>
>> The Fourier transforms in the methods will be wrong if the PSF is not per=
> fectly centered.
>>
>
> This is not true. The center (peak) of the PSF does not need to be in
> the center of the image stack.
> It is implemented in the following way:
>
> 1. find the (x,y,z) coordinates of the maximum value of the PSF stack
> (i.e. the peak of the PSF).
> 2. swap certain "quadrants" of the PSF stack using the peak
> coordinates computed in step 1.
> 3. compute 3D FFT of the swapped PSF stack.
>
> The details can be found on page 42 of "Deblurring Images. Matrices,
> Spectra and Filtering" by P. C. Hansen, J. G. Nagy and D. P. O'Leary.
Ah! I didnt realize that! Is it described on the docs pages at
http://sites.google.com/site/piotrwendykier/software/deconvolution/paralleliterativedeconvolutionand
http://pacific.mpi-cbg.de/wiki/index.php/Parallel_Iterative_Deconvolution#How_to_Obtain_a_Theoretical_PSF.3F?
maybe i missed it....
anyway, thats a great feature, as it makes using a measured PSF much easier!!!
Great!!!
Dan
Dr. Daniel James White BSc. (Hons.) PhD
Senior Microscopist / Image Visualisation, Processing and Analysis
Light Microscopy and Image Processing Facilities
Max Planck Institute of Molecular Cell Biology and Genetics
Pfotenhauerstrasse 108
01307 DRESDEN
Germany
+49 (0)15114966933 (German Mobile)
+49 (0)351 210 2627 (Work phone at MPI-CBG)
+49 (0)351 210 1078 (Fax MPI-CBG LMF)
http://www.bioimagexd.net BioImageXD
http://pacific.mpi-cbg.de Fiji - is just ImageJ (Batteries Included)
http://www.chalkie.org.uk Dan's Homepages
https://ifn.mpi-cbg.de Dresden Imaging Facility Network
dan (at) chalkie.org.uk
( white (at) mpi-cbg.de )