Difference between revisions of "Documentation/4.2/Modules/UKFTractography"

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#REDIRECT [[Documentation/Nightly/Modules/UKFTractography]]
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{{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}
This work is part of the National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149. Information on NA-MIC can be obtained from the [http://www.na-mic.org/ NA-MIC website].<br>
Author: Yogesh Rathi, Ph.D, Psychiatry Neuroimaging Laboratory, Brigham & Women's Hospital<br>
Contact: FIRSTNAME LASTNAME, <email>john@doe.org</email><br>
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|{{collaborator|logo|spl}}|{{collaborator|longname|spl}}  <-Replace this logo with yours
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{{documentation/{{documentation/version}}/module-section|Module Description}}
We present a framework which uses an unscented Kalman filter for performing
tractography. At each point on the fiber the most consistent direction is found
as a mixture of previous estimates and of the local model.
It is very easy to expand the framework and to implement new fiber representations
for it. Currently it is possible to tract fibers using two different 1-, 2-, or 3-tensor
methods. Both methods use a mixture of Gaussian tensors. One limits the diffusion
ellipsoids to a cylindrical shape (the second and third eigenvalue are assumed to be
identical) and the other one uses a full tensor representation.
Authors: Yogesh Rathi (yogesh@bwh.harvard.edu), Stefan Lienhard, Yinpeng Li, Martin
Styner, Ipek Oguz, Yundi Shi, Christian Baumgartner (c.f.baumgartner@gmail.com),
Ryan Eckbo
Here comes a description what the module is good for. Explain briefly how it works and point to the [[documentation/{{documentation/version}}/Modules/{{documentation/modulename}}#References|references]] giving more details on the algorithm.
If you are documenting a CLI, the description should be extracted from the corresponding XML description. This could be done automatically using the following wiki template:<pre>{{documentation/{{documentation/version}}/module-description}}
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{{documentation/{{documentation/version}}/module-section|Use Cases}}
* 1-Tensor tractography
* 1-Tensor tractography with free water
* 2-Tensor tractography
* 2-Tensor tractography with free water
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{{documentation/{{documentation/version}}/module-section|Panels and their use}}
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{{documentation/{{documentation/version}}/module-section|Similar Modules}}
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Reference for 2-tensor tractography:
* http://pnl.bwh.harvard.edu/pub/papers_html/MalcolmIEEETransMed10.html
Reference for 1-tensor and 2-tensor + free-water:
* C. Baumgartner, O. Michailovich, O. Pasternak, S. Bouix, J. Levitt, ME Shenton, C-F Westin, Y. Rathi,
"A unified tractography framework for comparing diffusion models on clinical scans": in Workshop
on computational diffusion MRI, 2012.
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{{documentation/{{documentation/version}}/module-section|Information for Developers}}
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Latest revision as of 07:37, 14 June 2013

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