Difference between revisions of "Slicer:Workshops:User Training 101"

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This is the introductory '''Slicer 2.6 ''' Tutorial.
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This is the introductory '''Slicer 2.6 ''' training material.
  
 
<div class="thumb tright"><div style="width: 96px">[[Image:Nac.png|[[Image:Nac.png|Link to the NAC website]]]]<div class="thumbcaption">[http://www.spl.harvard.edu/nac Link to the NAC website]</div></div></div>
 
<div class="thumb tright"><div style="width: 96px">[[Image:Nac.png|[[Image:Nac.png|Link to the NAC website]]]]<div class="thumbcaption">[http://www.spl.harvard.edu/nac Link to the NAC website]</div></div></div>
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You can begin to learn how to
 
You can begin to learn how to
  
* ** load and view data
+
* load and view data
** segment data and create 3D models
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* segment data and create 3D models
** use the DTI and fMRI modules
+
* use the DTI and fMRI modules
** For an overview, dowload this [[Media:NA-MIC-05-Slicer-Overview.ppt| slideshow]]
+
 
 +
For an overview, dowload this [[Media:NA-MIC-05-Slicer-Overview.ppt| slideshow]]
  
 
= Software Installation =
 
= Software Installation =
  
Please install the following software applications and files from the NAMIC site before the course: the current version of the Slicer program appropriate to your platform, the tutorial guide for Slicer, the generic sample data set.
+
Please install the following software applications and files from the NAMIC site before the course: the current version of the Slicer program appropriate to your platform, the tutorial guide for Slicer, the generic sample data set. This material is located in [[Slicer:Slicer2.6_Getting_Started|Slicer 2.6 Getting Started: Software & Sample Data ]].
 
 
This material is located in [[Slicer:Slicer2.6_Getting_Started|Slicer 2.6 Getting Started: Software & Sample Data ]].
 
  
 
= Data to Download =
 
= Data to Download =
  
* ** Get the Tutorial Data with Dicom [[Media:Tutorial-with-dicom.zip|tutorial_with_dicom.zip]]
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* Get the tutorial data with Dicom [[Media:Tutorial-with-dicom.zip|tutorial_with_dicom.zip]]
** Get this extra set of interoperative data [[Media:Mrt-images.zip| mrt-images.zip]]
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* Get this extra set of interoperative data [[Media:Mrt-images.zip| mrt-images.zip]]
** Get this data for testing registrations [[Media:Reg-sample.zip|reg-sample.zip]]
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* Get this data for testing registrations [[Media:Reg-sample.zip|reg-sample.zip]]
** Get these data for DTI demonstrations: [[Media:SlicerSampleDTI.zip|SlicerSampleDTI.zip ]] [[Media:Dwi-dicom.zip|dwi-dicom.zip]]
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* Get these data for DTI demonstrations: [[Media:SlicerSampleDTI.zip|SlicerSampleDTI.zip ]] [[Media:Dwi-dicom.zip|dwi-dicom.zip]]
** Get these data for FreeSurfer demonstrations: [[Media:FreeSurferSubjects.zip|FreeSurferSubjects.zip ]]
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* Get these data for FreeSurfer demonstrations: [[Media:FreeSurferSubjects.zip|FreeSurferSubjects.zip ]]
** Get these data for EMAtlasBrainClassifier demonstrations: [[Media:BrainAtlasClassifier.zip|BrainAtlasClassifier.zip]]
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* Get these data for EMAtlasBrainClassifier demonstrations: [[Media:BrainAtlasClassifier.zip|BrainAtlasClassifier.zip]]
** Get these data for EMSegmenter demonstrations: [[Media:EMSegmentTutorial.zip|EMSegmentTutorial.zip]]
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* Get these data for EMSegmenter demonstrations: [[Media:EMSegmentTutorial.zip|EMSegmentTutorial.zip]]
** Get these Tensor data for DTI Nrrd File Format demonstrations: [[Media:Tensor_data.zip| TensorData.zip]]
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* Get these Tensor data for DTI Nrrd File Format demonstrations: [[Media:Tensor_data.zip| TensorData.zip]]
** Get these Tensor data for DWI Nrrd File Format demonstrations: [[Media:Dwi-dicom.zip|dwi-dicom.zip]]
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* Get these Tensor data for DWI Nrrd File Format demonstrations: [[Media:Dwi-dicom.zip|dwi-dicom.zip]]
** Get these data for fMRI demonstrations: [[Media:FMRIData1_short.zip|fMRIData_short.zip]], [[Media:FMRIData2_long.zip|fMRIData_long.zip]]
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* Get these data for fMRI demonstrations: [[Media:FMRIData1_short.zip|fMRIData_short.zip]], [[Media:FMRIData2_long.zip|fMRIData_long.zip]]
  
 
= Slicer Training =
 
= Slicer Training =
  
* ** Slicer Training 1: [[Media:SlicerTraining1LoadingAndViewingData.ppt|Loading and Viewing Data ]] ''''''
+
* Slicer Training 1: [[Media:SlicerTraining1LoadingAndViewingData.ppt|Loading and Viewing Data ]] ''''''
** Slicer Training 2: [[Media:Slicer_Segmentation_Tutorial.ppt|Manual Segmentation and Model Making ]]
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* Slicer Training 2: [[Media:Slicer_Segmentation_Tutorial.ppt|Manual Segmentation and Model Making ]]
** Slicer Training 3: [[Media:03-LevelSet.ppt|Level-Set Segmentation]]
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* Slicer Training 3: [[Media:03-LevelSet.ppt|Level-Set Segmentation]]
** Slicer Training 4: [[Media:Slicer_DTMRI_Training4.ppt| DT-MRI module ]]
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* Slicer Training 4: [[Media:Slicer_DTMRI_Training4.ppt| DT-MRI module ]]
** Slicer Training 5: [[Media:SlicerTraining5_fMRI.ppt| fMRI module ]]
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* Slicer Training 5: [[Media:SlicerTraining5_fMRI.ppt| fMRI module ]]
** Slicer Training 6: [[Media:SlicerTraining6_vtkFreeSurferReaders.ppt| vtkFreeSurferReaders Module ]]
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* Slicer Training 6: [[Media:SlicerTraining6_vtkFreeSurferReaders.ppt| vtkFreeSurferReaders Module ]]
** Slicer Training 7: [[Media:SlicerTraining7SavingData.ppt| Saving Data ]]
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* Slicer Training 7: [[Media:SlicerTraining7SavingData.ppt| Saving Data ]]
** Slicer Training 8: [[Media:SlicerTraining8-NrrdFileFormat.ppt|Nrrd File Format]]
+
* Slicer Training 8: [[Media:SlicerTraining8-NrrdFileFormat.ppt|Nrrd File Format]]
** Slicer Training 9: [[Media:SlicerTraining9_DTI-FromDicomToNrrd.ppt|Dicom to Nrrd Conversion]]
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* Slicer Training 9: [[Media:SlicerTraining9_DTI-FromDicomToNrrd.ppt|Dicom to Nrrd Conversion]]
 +
* Slicer Advanced Training 10 :[[Media:SlicerAdvancedTraining_EMBrainAtlasClassifier_V1.0.ppt| EMBrainAtlasClassifier ]]
  
= Slicer Advanced Modules =
+
= Slicer Additional Resources =
 
+
* [[BrainAtlas|SPL PNL Brain Atlas]]
* ** Slicer Advanced Training:[[Media:SlicerAdvancedTraining_EMBrainAtlasClassifier_V1.0.ppt| EMBrainAtlasClassifier ]]
+
* [[IGT-Tutorials|IGT Tutorial Materials]]
** [[BrainAtlas|SPL PNL Brain Atlas]]
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* [[Media:Training_EMLocalSegment_v1.pdf | EMSegmenter]] for multi-channel data and white matter hyperintensities
** [[IGT-Tutorials|IGT Tutorial Materials]]
 
** [[Media:Training_EMLocalSegment_v1.pdf | EMSegmenter]] for multi-channel data and white matter hyperintensities
 
 
 
= Bug reports and Feedback =
 
  
 +
= Feedback and Bug reports =
 +
For course related questions, please send an e-mail to Sonia Pujol, Ph.D. (spujol at bwh.harvard.edu).
 +
* [[Slicer:Feedback|Feedback about Slicer]]
 
* [http://www.na-mic.org/Bug/ Bug reports]
 
* [http://www.na-mic.org/Bug/ Bug reports]
* [[Slicer:Feedback|Feedback about Slicer]]
 
  
 
= 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.
 
  
 
<br /> Back to [[Training:Main|Training:Main]]
 
<br /> Back to [[Training:Main|Training:Main]]

Revision as of 21:37, 10 January 2007

Home < Slicer:Workshops:User Training 101

This is the introductory Slicer 2.6 training material.

Introduction

You can begin to learn how to

  • load and view data
  • segment data and create 3D models
  • use the DTI and fMRI modules

For an overview, dowload this slideshow

Software Installation

Please install the following software applications and files from the NAMIC site before the course: the current version of the Slicer program appropriate to your platform, the tutorial guide for Slicer, the generic sample data set. This material is located in Slicer 2.6 Getting Started: Software & Sample Data .

Data to Download

Slicer Training

Slicer Additional Resources

Feedback and Bug reports

For course related questions, please send an e-mail to Sonia Pujol, Ph.D. (spujol at bwh.harvard.edu).

Acknowledgements

  • Slicer is being developed by a community of contributors. For more information see the Slicer website.


Back to Training:Main