Difference between revisions of "Slicer:Workshops:User Training 101"
From NAMIC Wiki
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[[Image:101.png|thumb|right|350px|Excerpts from the Slicer 101 courses: Diffusion Tensor Imaging fiber tractography (top); fMRI activation map (lower-left); automatic brain segmentation (lower-right).]] | [[Image:101.png|thumb|right|350px|Excerpts from the Slicer 101 courses: Diffusion Tensor Imaging fiber tractography (top); fMRI activation map (lower-left); automatic brain segmentation (lower-right).]] | ||
* Get this extra set of interoperative data [[Media:Mrt-images.zip| mrt-images.zip]] | * Get this extra set of interoperative data [[Media:Mrt-images.zip| mrt-images.zip]] | ||
| − | * Get this data for registration demonstrations: [ | + | * Get this data for registration demonstrations: [http://www.na-mic.org/Wiki/images/1/14/RegistrationSample.zip RegistrationSample.zip] |
* Get these data for DTI demonstrations: [[Media:SlicerSampleDTI.zip|SlicerSampleDTI.zip ]] [[Media:Dwi-dicom.zip|dwi-dicom.zip]] | * 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 ]] | * Get these data for FreeSurfer demonstrations: [[Media:FreeSurferSubjects.zip|FreeSurferSubjects.zip ]] | ||
Revision as of 14:57, 2 May 2007
Home < Slicer:Workshops:User Training 101This is the introductory Slicer 2.6 training material.
Contents
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
- Get the tutorial data with Dicom tutorial_with_dicom.zip
- Get this extra set of interoperative data mrt-images.zip
- Get this data for registration demonstrations: RegistrationSample.zip
- Get these data for DTI demonstrations: SlicerSampleDTI.zip dwi-dicom.zip
- Get these data for FreeSurfer demonstrations: FreeSurferSubjects.zip
- Get these data for EMAtlasBrainClassifier demonstrations: BrainAtlasClassifier.zip
- Get these data for EMSegmenter demonstrations: EMSegmentTutorial.zip
- Get these Tensor data for DTI Nrrd File Format demonstrations: TensorData.zip
- Get these Tensor data for DWI Nrrd File Format demonstrations: dwi-dicom.zip
- Get these data for fMRI demonstrations: fMRIData_short.zip, fMRIData_long.zip
Slicer Training
- Slicer Training 1: Loading and Viewing Data
- Slicer Training 2: Manual Segmentation and Model Making
- Slicer Training 3: Level-Set Segmentation
- Slicer Training 4: DT-MRI module
- Slicer Training 5: fMRI module
- Slicer Training 6: vtkFreeSurferReaders Module
- Slicer Training 7: Saving Data
- Slicer Training 8: Nrrd File Format
- Slicer Training 9: Dicom to Nrrd Conversion
- Slicer Advanced Training 10 : EMBrainAtlasClassifier
Slicer Additional Resources
- SPL PNL Brain Atlas
- IGT Tutorial Materials
- 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. This data is organized in analogy to the brain atlas above. The zip archive contains a .txt file with the key for the label values and their anatomical meaning.
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.
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