[Rtk-users] 3D TV regularization

Fri Jun 20 10:46:30 CEST 2014

Thank you very much. That seems to do the trick.

Best,
Uffe

________________________________
Fra: Cyril Mory [mailto:cyril.mory at creatis.insa-lyon.fr]
Sendt: 19. juni 2014 11:32
Til: Uffe Bernchou
Cc: rtk-users at openrtk.org
Emne: Re: 3D TV regularization

Dear Uffe,

Simply increasing the size of the reconstructed volume until the object is fully contained in it should do the trick. An intuitive way to understand this is the following: the algorithm tries to "explain" the attenuation it sees on the projections. If the data has been partially truncated, some rays have "extra attenuation" that has to go somewhere in the reconstructed volume. The center of the reconstructed volume is constrained by all the other rays, so this "extra attenuation" is pushed to the borders. If, on the other hand, the reconstructed volume is large enough, this "extra attenuation" can go where it belongs, and does not cause hyperattenuation on the borders.

Note that you can still apply a crop to FOV at the very end of the reconstruction process.

I hope it helps
Regards,
Cyril
On 06/19/2014 11:02 AM, Uffe Bernchou wrote:
Dear Cyril,

We are currently playing with the 3D TV regularization iterative reconstruction implemented in RTK for our cone beam data. The results look promising indeed.

One thing that worries me a little is a ring artefact we observe in the reconstructions (please see attached image). This ring artefact we usually remove in the standard fdk reconstruction by using padding. Does the TV regularization iterative reconstruction have a similar feature for removing the ring artefact?

Best regards
Uffe Bernchou

________________________________
Fra: Cyril Mory [mailto:cyril.mory at creatis.insa-lyon.fr]
Sendt: 3. juni 2014 17:30
Til: Uffe Bernchou; 'Simon Rit'
Cc: rtk-users at openrtk.org<mailto:rtk-users at openrtk.org>
Emne: Re: [Rtk-users] Release of RTK v1.0.0

Dear Uffe,

The method is described and compared to others in this PhD thesis :
http://tel.archives-ouvertes.fr/docs/00/98/57/28/PDF/TH2014_Mory_Cyril.pdf
That's for the pdf. You can access the description here :
http://tel.archives-ouvertes.fr/tel-00985728

Your comments/questions are welcome.

Best regards,
Cyril
Le 03/06/2014 14:36, Uffe Bernchou a écrit :
Dear Simon,

Do you have a reference publication for the new iterative 3D reconstruction with 3D TV regularization implemented in the v.1.00 release of RTK?

Best regards,
Uffe

------------------------------
Uffe Bernchou, Ph.D.
Postdoc

Laboratory of Radiation Physics, Odense University Hospital
Institute of Clinical Research, University of Southern Denmark
Email: uffe.bernchou at rsyd.dk<mailto:uffe.bernchou at rsyd.dk>
Phone: +45 29796478
Sdr. Boulevard 29, Indgang 97, 5000 Odense C

________________________________
Fra: Rtk-users [mailto:rtk-users-bounces at openrtk.org] På vegne af Simon Rit
Sendt: 28. april 2014 16:33
Til: rtk-users at openrtk.org<mailto:rtk-users at openrtk.org>
Emne: [Rtk-users] Release of RTK v1.0.0

Dear RTK users,
It is my pleasure to announce the release of RTK v1.0.0. As announced previously on the mailing list, the new release is no more compatible with ITK 3.20, this release is compatible with ITK v4.2.0 and more recent releases. We are still actively developing RTK with both new filtered backprojection and iterative algorithms so I still encourage the use of git to be up-to-date. As usual, please report any issue that you encounter with RTK, we are happy to help when we can. Note the list of publications using RTK<http://www.openrtk.org/RTK/project/publications.php> on the main site: please send me the DOI of your articles if you want them to appear there. We have also added a webpage with use cases<http://www.openrtk.org/RTK/project/casestudies.html>.
I'm looking forward to your feedback. Regards,
Simon

Release notes:
- introduction of the itk::CudaImage object that better handles the memory transfers between the CPU and the GPU
- pre-processing for projection images: binning, median filter, lookup-table filter
- filtered backprojection with offset center-of-rotation based on [Gullberg et al, TMI, 1986]
- improved Joseph forward projector and implementation of its exact adjoint
- improved SART reconstruction [Andersen, Ultrason Imaging, 1984]
- new iterative 3D reconstruction using conjugate gradient optimization
- new iterative 3D reconstruction with 3D TV regularization using the Alternating Direction Method of Multipliers combined with the Augmented Lagrangian method
Documentation:
- improved Doxygen with dot graphs to describe mini-pipelines, e.g., in the SART page<http://www.openrtk.org/Doxygen/classrtk_1_1SARTConeBeamReconstructionFilter.html>
- updated consortium<http://www.openrtk.org/RTK/project/consortium.html> and alternative platforms<http://www.openrtk.org/RTK/resources/alternatives.html> pages
- updated wiki

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Cyril Mory, Post-doc

CREATIS

Leon Berard cancer treatment center

28 rue Laënnec

69373 Lyon cedex 08 FRANCE

Mobile: +33 6 69 46 73 79

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Cyril Mory, Post-doc

CREATIS

Leon Berard cancer treatment center

28 rue Laënnec

69373 Lyon cedex 08 FRANCE

Mobile: +33 6 69 46 73 79
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