View source for Documentation/4.3/Extensions/SlicerRT

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[[File:LogoCco.png|Cancer Care Ontario]]
[[File:Logo-SparKit.png|SparKit]]
[[File:LogoOCAIRO.jpg|SparKit]]
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{{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}
Authors: <b>Csaba Pinter</b> (PerkLab, Queen's University), <b>Andras Lasso</b> (PerkLab, Queen's University), <b>Kevin Wang</b> (Radiation Medicine Program, Princess Margaret Hospital, University Health Network Toronto)<br>
Contributors: Greg Sharp (Massachusetts General Hospital), Steve Pieper (Isomics)<br>
Contacts:
* Csaba Pinter, <email>csaba.pinter@queensu.ca</email>
* Andras Lasso, <email>lasso@cs.queensu.ca</email>
* Mailing list, <email>slicerrt@alerts.assembla.com</email> (need to register to [http://www.assembla.com Assembla] using the email address from which the email is sent)
* [[Documentation/SlicerRT/HowToReportAnError|How to report an error]]
Website: [http://slicerrt.github.io slicerrt.org]<br>
License: [http://www.slicer.org/pages/LicenseText Slicer license]<br>
'''Download/install:''' install 3D Slicer, start 3D Slicer, open the Extension Manager, install the SlicerRT extension (see more details [http://slicerrt.github.io/Download.html on the download page])

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{{documentation/{{documentation/version}}/extension-section|Extension Description}}
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[[Image:SlicerRT_Logo_2.0_128x128.png]]
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* SlicerRT is one of the themes of the SparKit (Software Platform and Adaptive Radiotherapy Kit) project with the goal of making 3D Slicer a powerful radiotherapy research platform.<br>SparKit is a project funded by Cancer Care Ontarioand the Ontario Consortium for Adaptive Interventions in Radiation Oncology (OCAIRO) to provide free, open-source toolset for radiotherapy and related image-guided interventions.

* The SlicerRT extension incorporates [[Documentation/{{documentation/version}}/Extensions/Plastimatch|Plastimatch]] modules and algorithms.

* Additional information for users can be found on the [[Documentation/SlicerRT/UsersGuide|User's guide]] page <br>
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{{documentation/{{documentation/version}}/extension-section|Modules}}

*[[Documentation/{{documentation/version}}/Modules/DicomRtImport|DICOM-RT import]]
*[[Documentation/{{documentation/version}}/Modules/DicomRtExport|DICOM-RT export]]
*[[Documentation/{{documentation/version}}/Modules/Contours|Contours]]
*[[Documentation/{{documentation/version}}/Modules/DoseVolumeHistogram|Dose volume histogram]]
*[[Documentation/{{documentation/version}}/Modules/DoseAccumulation|Dose accumulation]]
*[[Documentation/{{documentation/version}}/Modules/DoseComparison|Dose comparison]]
*[[Documentation/{{documentation/version}}/Modules/Isodose|Isodose line and surface display]]
*[[Documentation/{{documentation/version}}/Modules/ContourComparison|Contour comparison]]
*[[Documentation/{{documentation/version}}/Modules/ContourMorphology|Contour morphology]]

* Modules from [[Documentation/{{documentation/version}}/Extensions/Plastimatch|Plastimatch]] (Greg Sharp)
**[[Documentation/{{documentation/version}}/Modules/PlmBSplineDeformableRegistration|Plastimatch Automatic deformable image registration]] (Greg Sharp)
**[[Documentation/{{documentation/version}}/Modules/PlmLANDWARP|Plastimatch LANDWARP Landmark]] (Greg Sharp)
**[[Documentation/{{documentation/version}}/Modules/PlmXFORMWARP|Plastimatch XFORMWARP]] (Greg Sharp)[[image:UnderConstruction.png|tumb|10px]]
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**[[Documentation/{{documentation/version}}/Modules/PlmDICOMRTImport|Plastimatch DICOM-RT import]] (Greg Sharp)
**[[Documentation/{{documentation/version}}/Modules/PlmDICOMRTExport|Plastimatch DICOM-RT export]] (Greg Sharp)[[image:UnderConstruction.png|tumb|10px]]
**[[Documentation/{{documentation/version}}/Modules/PlmDoseComparison|Plastimatch Dose Comparison]] (Greg Sharp)[[image:UnderConstruction.png|tumb|10px]]
**[[Documentation/{{documentation/version}}/Modules/PlmDoseVolumeHistogram|Plastimatch Dose Volume Histogram]] (Greg Sharp)[[image:UnderConstruction.png|tumb|10px]]
**[[Documentation/{{documentation/version}}/Modules/PlmSyntheticImageGeneration|Plastimatch Synthetic Image Generation]] (Greg Sharp)[[image:UnderConstruction.png|tumb|10px]]
**[[Documentation/{{documentation/version}}/Modules/PlmThreshBox|Plastimatch Threshold in a box]] (Greg Sharp)[[image:UnderConstruction.png|tumb|10px]]
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* Former SlicerRT modules integrated to Slicer core
**[[Documentation/{{documentation/version}}/Modules/SubjectHierarchy|Subject hierarchy]]
**[[Documentation/{{documentation/version}}/Modules/DeformationFieldVisualizer|Transform visualizer]]

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{{documentation/{{documentation/version}}/extension-section|Use Cases}}
* Comparison of dose maps and dose volume histograms from various treatment planning systems
* Evaluation of the effect of image-based non-rigid patient motion compensation
* Dose accumulation with motion compensation
* Evaluation of gel dosimetry
* Testing of treatment planning algorithms

| [[File:SlicerRt_Montage.jpg|1024px|SlicerRT highlights]]
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{{documentation/{{documentation/version}}/extension-section|Tutorials}}
* '''Summer NA-MIC week 2013 tutorial''' (recommended)
** Tutorial presentation: [http://wiki.na-mic.org/Wiki/images/b/b0/SlicerRT_TutorialContestSummer2013.pdf download] from Slicer wiki
** Sample data: [http://slicer.kitware.com/midas3/download/folder/1345/SlicerRtTutorial_Namic2013June.zip download] from MIDAS
* ECR 2013 - Medical University Vienna workshop
** Workshop material: [http://www.na-mic.org/Wiki/index.php/File:Pinter_MedUni2013_Workshop.pdf download] from NA-MIC.org
* RSNA 2012 tutorial
** Tutorial description: [http://www.donotlink.com/bEo SlicerRT wiki: Slicer tutorials at RSNA 2012]
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** Sample data: [http://slicer.kitware.com/midas3/folder/859 download] SlicerRT ART dose verification data from Midas server
* Summer NA-MIC week 2012 tutorial
** Tutorial presentation: [http://www.donotlink.com/bEp download] from the SlicerRT website
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** Sample data: [http://www.donotlink.com/bEq download] from the SlicerRT website
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{{documentation/{{documentation/version}}/extension-section|Similar Extensions}}
* [[Documentation/{{documentation/version}}/Extensions/Plastimatch|Plastimatch]]: SlicerRT and Plastimatch are complementary software libraries. Plastimatch focuses on delivering new computational methods radiotherapy, while SlicerRT aims for providing an easy-to-use interface for a wide range of stable, well-tested radiotherapy related features. SlicerRT uses Plastimatch internally for certain operations.
* [[Documentation/{{documentation/version}}/Modules/GelDosimetry|Gel Dosimetry]]: Slicelet facilitating a streamlined workflow to perform gel dosimetry analysis for commissioning linacs and evaluating new dose calculation procedures

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{{documentation/{{documentation/version}}/extension-section|References}}
==How to cite==
Please cite the following paper when referring to SlicerRt in your publication:<br>
C. Pinter, A. Lasso, A. Wang, D. Jaffray and G. Fichtinger, [http://perk.cs.queensu.ca/sites/perk.cs.queensu.ca/files/Pinter2012_0.pdf "SlicerRT – Radiation therapy research toolkit for 3D Slicer"], Med. Phys., 39(10) pp. 6332-6338, 2012
<pre>
@ARTICLE{Pinter2012,
  author = {Pinter, C. and Lasso, A. and Wang, A. and Jaffray, D. and Fichtinger, G.},
  title = {SlicerRT – Radiation therapy research toolkit for 3D Slicer},
  journal = {Med. Phys.},
  year = {2012},
  volume = {39},
  number = {10},
  pages = {6332-6338},
}
</pre>

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{{documentation/{{documentation/version}}/extension-section|Information for Developers}}
* [http://www.donotlink.com/bEr SlicerRT developers wiki page]
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