Difference between revisions of "Documentation/Nightly/Extensions/FinslerTractography"

From Slicer Wiki
Jump to: navigation, search
(Created page with '<noinclude>{{documentation/versioncheck}}</noinclude> <!-- ---------------------------- --> {{documentation/{{documentation/version}}/module-header}} <!-- -----------------------…')
 
Line 8: Line 8:
 
{{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}
 
{{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}
 
{{documentation/{{documentation/version}}/module-introduction-row}}
 
{{documentation/{{documentation/version}}/module-introduction-row}}
 +
 
Acknowledgments:
 
Acknowledgments:
This work is part of the National Alliance for Medical Image Computing (NAMIC), funded by ... <br>
+
Supported by grant number FMECD-2010/71131616E from the Spanish Ministry of Education/Fulbright Committee <br>
 
Author:Greg Sharp<br>
 
Author:Greg Sharp<br>
Contributors: Jean-Christophe Fillion-Robin ({{collaborator|name|kitware}})<br>
+
Contributors: Antonio Tristan Vega, Demian Wassermann and Carl-Fredrik Westin. The directional iterators were contributed by Luis Ibanez (Kitware).<br>
Contact: Greg Sharp, <email>gcsharp@partners.org</email><br>
+
 
Website: http://plastimatch.org/<br>
 
License: [http://forge.abcd.harvard.edu/gf/project/plastimatch/scmsvn/?action=browse&path=%2F*checkout*%2Fplastimatch%2Ftrunk%2Fsrc%2Fplastimatch%2FLICENSE.TXT&revision=2388 BSD]
 
 
{{documentation/{{documentation/version}}/module-introduction-row}}
 
{{documentation/{{documentation/version}}/module-introduction-row}}
 
{{documentation/{{documentation/version}}/module-introduction-logo-gallery
 
{{documentation/{{documentation/version}}/module-introduction-logo-gallery
Line 24: Line 23:
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
 
{{documentation/{{documentation/version}}/extension-section|Extension Description}}
 
{{documentation/{{documentation/version}}/extension-section|Extension Description}}
Plastimatch is an open source software for image computation. Our main focus is high-performance volumetric registration of medical images, such as X-ray computed tomography (CT), magnetic resonance imaging (MRI), and positron emission tomography (PET). Software features include:
+
This module implements the Finsler tractography method with HARDI data described by J. Melonakos et al. From a set of seeding and target points, the paths are estimated as the shortest path taking into account a local, directional dependent cost.
 
 
*B-spline method for deformable image registration (GPU and multicore accelerated)
 
*Demons method for deformable image registration (GPU accelerated)
 
*ITK-based algorithms for translation, rigid, affine, demons, and B-spline registration
 
*Pipelined, multi-stage registration framework with seamless conversion between most algorithms and transform types
 
*Landmark-based deformable registration using thin-plate splines for global registration
 
*Landmark-based deformable registration using radial basis functions for local corrections
 
*Broad support for 3D image file formats (using ITK), including DICOM, Nifti, NRRD, MetaImage, and Analyze
 
*DICOM and DICOM-RT import and export
 
*XiO import and export
 
  
 +
The output provided is the connectivity map from each voxel in the volume to the seeding points, plus a vector volume with the directions tangent to the fiber bundles at each point. If the Backtracing module within is built, these directions can be traced back to actually compute the fiber bundles
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
 
{{documentation/{{documentation/version}}/extension-section|Modules}}
 
{{documentation/{{documentation/version}}/extension-section|Modules}}

Revision as of 15:46, 2 May 2014

Home < Documentation < Nightly < Extensions < FinslerTractography

For the stable Slicer documentation, visit the 4.10 page.

Introduction and Acknowledgements

Acknowledgments: Supported by grant number FMECD-2010/71131616E from the Spanish Ministry of Education/Fulbright Committee
Author:Greg Sharp
Contributors: Antonio Tristan Vega, Demian Wassermann and Carl-Fredrik Westin. The directional iterators were contributed by Luis Ibanez (Kitware).

National Alliance for Medical Image Computing (NA-MIC)  


Extension Description

This module implements the Finsler tractography method with HARDI data described by J. Melonakos et al. From a set of seeding and target points, the paths are estimated as the shortest path taking into account a local, directional dependent cost.

The output provided is the connectivity map from each voxel in the volume to the seeding points, plus a vector volume with the directions tangent to the fiber bundles at each point. If the Backtracing module within is built, these directions can be traced back to actually compute the fiber bundles

Modules

Use Cases

Sample data to use with modules.

Tutorials

Similar Extensions

N/A

References

  • G Sharp, N Kandasamy, H Singh, M Folkert, "GPU-based streaming architectures for fast cone-beam CT image reconstruction and demons deformable registration," Physics in Medicine and Biology, 52(19), pp 5771-83, 2007.
  • V Boldea, G Sharp, SB Jiang, D Sarrut, "4D-CT lung motion estimation with deformable registration: Quantification of motion nonlinearity and hysteresis," Medical Physics, 33(3), pp 1008-18, 2008.
  • Z Wu, E Rietzel, V Boldea, D Sarrut, G Sharp, "Evaluation of deformable registration of patient lung 4DCT with sub-anatomical region segmentations," Medical Physics, 35(2), pp 775-81, 2008.
  • G Sharp et al. "Plastimatch - An open source software suite for radiotherapy image processing," Proceedings of the XVIth International Conference on the use of Computers in Radiotherapy, May, 2010.
  • N. Shusharina, G. Sharp "Landmark-based image registration with analytic regularization", IEEE Trans. Med. Imag., submitted, 2011.

Information for Developers