Difference between revisions of "Slicer:Workshops:User Training 101 SPujol"
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| − | + | [[Image:Nac.png|thumb|right|[http://nac.spl.harvard.edu Link to the '''NAC''' website]]] | |
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= Introduction = | = Introduction = | ||
| − | This is a training compendium for | + | This is a training compendium for using 3DSlicer. This work is jointly sponsored by NA-MIC, NAC and NCIGT. |
This series of courses will teach you how to | This series of courses will teach you how to | ||
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* segment data and create 3D models | * segment data and create 3D models | ||
* perform Diffusion Tensor Imaging and fMRI analysis | * perform Diffusion Tensor Imaging and fMRI analysis | ||
| − | For an overview of Slicer, dowload this [[Media:NA-MIC-05-Slicer-Overview.ppt| slideshow]] | + | For an overview of Slicer, dowload this [[Media:NA-MIC-05-Slicer-Overview.ppt| slideshow]]. |
= Software = | = Software = | ||
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| + | '''Training support for Slicer3 is under active development. For currently available materials start [http://www.slicer.org/pages/UserOrientation here]''' | ||
= Training Compendium = | = Training Compendium = | ||
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| '''Course''' | | '''Course''' | ||
| '''Dataset''' | | '''Dataset''' | ||
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[[Media:BrainAtlasClassifier.zip|BrainAtlasClassifier.zip ]] | [[Media:BrainAtlasClassifier.zip|BrainAtlasClassifier.zip ]] | ||
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| − | | [[Image:Training11Registration.PNG| | + | | [[Image:Training11Registration.PNG|50px]] |
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[[Media:SlicerAdvancedTraining11_Registration.ppt| Registration]] | [[Media:SlicerAdvancedTraining11_Registration.ppt| Registration]] | ||
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| [[Image:Training9DicomToNrrd.PNG|50px]] | | [[Image:Training9DicomToNrrd.PNG|50px]] | ||
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| − | [[Media:SlicerTraining9_DTI-FromDicomToNrrd.ppt| Nrrd | + | [[Media:SlicerTraining9_DTI-FromDicomToNrrd.ppt| Dicom to Nrrd Conversion ]] |
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[[Media:Dwi-dicom.zip|Dwi-dicom.zip]] | [[Media:Dwi-dicom.zip|Dwi-dicom.zip]] | ||
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[[Media:FMRIData1_short.zip|FMRIData1_short.zip]] [[Media:FMRIData2_long.zip|FMRIData2_long.zip]] | [[Media:FMRIData1_short.zip|FMRIData1_short.zip]] [[Media:FMRIData2_long.zip|FMRIData2_long.zip]] | ||
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| − | | [[Image:Training6FreeSurfer. | + | | [[Image:Training6FreeSurfer.png|50px]] |
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[[Media:SlicerTraining6_vtkFreeSurferReaders.ppt| FreeSurfer Reader ]] | [[Media:SlicerTraining6_vtkFreeSurferReaders.ppt| FreeSurfer Reader ]] | ||
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[[Media:FreeSurferSubjects.zip|FreeSurferSubjects.zip ]] | [[Media:FreeSurferSubjects.zip|FreeSurferSubjects.zip ]] | ||
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= Slicer Additional Resources = | = Slicer Additional Resources = | ||
[[Image:Limbic-2007.jpg|thumb|right|330px| A rendering of the Limbic System from the SPL PNL brain atlas]] | [[Image:Limbic-2007.jpg|thumb|right|330px| A rendering of the Limbic System from the SPL PNL brain atlas]] | ||
| − | * [ | + | * [http://www.slicer.org/publications/item/view/1265 SPL PNL Brain Atlas] |
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* [[Media:Training_EMLocalSegment_v1.pdf | EMSegmenter]] for multi-channel [[Media:EMSegmentTutorial.zip|data]] and white matter hyperintensities | * [[Media:Training_EMLocalSegment_v1.pdf | EMSegmenter]] for multi-channel [[Media:EMSegmentTutorial.zip|data]] and white matter hyperintensities | ||
| − | * [ | + | * [http://www.na-mic.org/Wiki/index.php/DataFusion Data Fusion and Registration] |
* [http://astromed.iic.harvard.edu/UsingSlicer Using 3DSlicer in Astronomy] | * [http://astromed.iic.harvard.edu/UsingSlicer Using 3DSlicer in Astronomy] | ||
* [[SlicerOnBIRN|How to use Slicer with BIRN]] | * [[SlicerOnBIRN|How to use Slicer with BIRN]] | ||
| − | * [[media: | + | * CT based atlas of the [http://spl.harvard.edu/pages/Special:PubDB_View?dspaceid=1266 abdomen] for Slicer 3. The [[media:Abdominal_Atlas_Tutorial08.ppt|tutorial]] describing how to load and display the data in Slicer 3 |
| + | * [http://www.airwayinspector.org/ Airway inspector]: 3D Slicer based tool for morphometry analysis of the lung airways and emphysema. | ||
= Feedback = | = Feedback = | ||
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= Acknowledgements = | = Acknowledgements = | ||
*Slicer is being developed by a community of contributors. For more information see the [http://www.slicer.org Slicer] website. | *Slicer is being developed by a community of contributors. For more information see the [http://www.slicer.org Slicer] website. | ||
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Latest revision as of 14:20, 4 May 2011
Home < Slicer:Workshops:User Training 101 SPujol
Contents
Introduction
This is a training compendium for using 3DSlicer. This work is jointly sponsored by NA-MIC, NAC and NCIGT.
This series of courses will teach you how to
- load and view data
- segment data and create 3D models
- perform Diffusion Tensor Imaging and fMRI analysis
For an overview of Slicer, dowload this slideshow.
Software
The current version of Slicer that is fully supported is Slicer 2.6.
Please follow the Slicer 2.6 Getting Started instructions to install the version of the Slicer program appropriate to your platform.
Training support for Slicer3 is under active development. For currently available materials start here
Training Compendium
For course related questions, please send an e-mail to Sonia Pujol, Ph.D. (spujol at bwh.harvard.edu).
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Slicer Additional Resources
- SPL PNL Brain Atlas
- EMSegmenter for multi-channel data and white matter hyperintensities
- Data Fusion and Registration
- Using 3DSlicer in Astronomy
- How to use Slicer with BIRN
- CT based atlas of the abdomen for Slicer 3. The tutorial describing how to load and display the data in Slicer 3
- Airway inspector: 3D Slicer based tool for morphometry analysis of the lung airways and emphysema.
Feedback
Acknowledgements
- Slicer is being developed by a community of contributors. For more information see the Slicer website.
