Difference between revisions of "Documentation/4.4/Extensions/MarginCalculator"

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Acknowledgments:
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Contributors: Kevin Wang (Princess Margaret Cancer Centre), Winnie Li (Princess Margaret Cancer Centre)<br>
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This work is part of the National Alliance for Medical Image Computing (NAMIC), funded by ... <br>
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Contact: Kevin Wang, <email>kevin.wang@rmp.uhn.ca</email><br>
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Author:Greg Sharp<br>
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Website: http://www.assembla.com/spaces/margincalculator<br>
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Contributors: Jean-Christophe Fillion-Robin ({{collaborator|name|kitware}})<br>
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License: [http://www.slicer.org/pages/LicenseText Slicer license]
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Contact: Greg Sharp, <email>gcsharp@partners.org</email><br>
 
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Website: http://plastimatch.org/<br>
 
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License: [http://forge.abcd.harvard.edu/gf/project/plastimatch/scmsvn/?action=browse&path=%2F*checkout*%2Fplastimatch%2Ftrunk%2Fsrc%2Fplastimatch%2FLICENSE.TXT&revision=2388 BSD]
 
 
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|{{collaborator|logo|sparkit}}|SparKit
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|{{collaborator|logo|namic}}|NA-MIC
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|{{collaborator|logo|perklab}}|PerkLab
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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:
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Multidimensional data is an extension of 3D Slicer to allow creating and visualization of higher-dimension data nodes, such as 4D volumes, models changing in time, markups changing in time, sequences of transforms, scene camera trajectory, or even sequence of sequences. Software features include:
  
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*B-spline method for deformable image registration (GPU and multicore accelerated)
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* Synthetic dose volume generation for testing.
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*Demons method for deformable image registration (GPU accelerated)
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* Motion simulation for systematic and random errors.
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*ITK-based algorithms for translation, rigid, affine, demons, and B-spline registration
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* Dose population histogram generation based on motion simulation.
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*Pipelined, multi-stage registration framework with seamless conversion between most algorithms and transform types
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* A complete simulation module for margin calculation.
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*Landmark-based deformable registration using thin-plate splines for global registration
 
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*Landmark-based deformable registration using radial basis functions for local corrections
 
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*Broad support for 3D image file formats (using ITK), including DICOM, Nifti, NRRD, MetaImage, and Analyze
 
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*DICOM and DICOM-RT import and export
 
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*XiO import and export
 
  
 
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*[[Documentation/{{documentation/version}}/Modules/PlmBSplineDeformableRegistration|Plastimatch Automatic deformable image registration]]
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*[[Documentation/{{documentation/version}}/Modules/PlmDICOMRTImport|Plastimatch DICOM-RT import]]
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*[[Documentation/{{documentation/version}}/Modules/Sequences|Sequences]]
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*[[Documentation/{{documentation/version}}/Modules/PlmLANDWARP|Plastimatch LANDWARP Landmark]]
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*[[Documentation/{{documentation/version}}/Modules/SequenceBrowser|Sequence browser]]
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*[[Documentation/{{documentation/version}}/Modules/MetafileImporter|Tracked ultrasound sequence importer]]
  
 
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* 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.
 
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* 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.
 
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* 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.
 
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* 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.
 
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* N. Shusharina, G. Sharp "Landmark-based image registration with analytic regularization", IEEE Trans. Med. Imag., submitted, 2011.
 
  
 
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* Source code: https://subversion.assembla.com/svn/margincalculator/trunk/MarginCalculator/
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* Issue tracker:  [https://www.assembla.com/spaces/dG15GuCs4r4l4UeJe5cbCb/tickets/report/u1049984 open issues and enhancement requests]
  
 
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Revision as of 20:03, 21 August 2015

Home < Documentation < 4.4 < Extensions < MarginCalculator


For the latest Slicer documentation, visit the read-the-docs.


Introduction and Acknowledgements

Contributors: Kevin Wang (Princess Margaret Cancer Centre), Winnie Li (Princess Margaret Cancer Centre)
Contact: Kevin Wang, <email>kevin.wang@rmp.uhn.ca</email>
Website: http://www.assembla.com/spaces/margincalculator
License: Slicer license

SparKit  
NA-MIC  
OCAIRO  


Extension Description

Multidimensional data is an extension of 3D Slicer to allow creating and visualization of higher-dimension data nodes, such as 4D volumes, models changing in time, markups changing in time, sequences of transforms, scene camera trajectory, or even sequence of sequences. Software features include:

  • Synthetic dose volume generation for testing.
  • Motion simulation for systematic and random errors.
  • Dose population histogram generation based on motion simulation.
  • A complete simulation module for margin calculation.

Modules

Use Cases

Sample data to use with modules.

  • DICOM-RT Structure Set

  • DICOM-RT Dose

  • Before Registration

  • After Registration

  • Before Registration

  • After Registration

Tutorials

Similar Extensions

N/A

References

Information for Developers

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