Difference between revisions of "Slicer3.4:Training"

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| style="background:#FFD700; color:black" align="Center"| <span id="1.1"></span> '''Core'''
 
| style="background:#FFD700; color:black" align="Center"| <span id="1.1"></span> '''Core'''
 
| style="background:#FFFE59; color:black" | '''[[Media:ProgrammingIntoSlicer3_SoniaPujol.pdf | Programming in Slicer3 Tutorial ]]''' <br><br> The Programming in Slicer3 tutorial is an introduction to the the integration of stand-alone programs outside of the Slicer3 source tree.<br> <br>'''Audience''': Programmers and Engineers.   
 
| style="background:#FFFE59; color:black" | '''[[Media:ProgrammingIntoSlicer3_SoniaPujol.pdf | Programming in Slicer3 Tutorial ]]''' <br><br> The Programming in Slicer3 tutorial is an introduction to the the integration of stand-alone programs outside of the Slicer3 source tree.<br> <br>'''Audience''': Programmers and Engineers.   
| style="background:#FFFE59; color:black" | [[Media:HelloWorld_Plugin.zip| HelloWorld_Plugin.zip ]]<br><br> The HelloWorld  tutorial dataset contains an MR scan of the brain and pre-computed xml and C++ files for integrating the Hello World plug-in to Slicer3.
+
| style="background:#FFFE59; color:black" | [[Media:HelloWorld_Plugin.zip| '''HelloWorld Plugin ''']]<br><br> The HelloWorld  tutorial dataset contains an MR scan of the brain and pre-computed xml and C++ files for integrating the Hello World plug-in to Slicer3.
 
| style="background:#FFFE59; color:black" align="Center"| [[Image:ProgrammingCourse_Logo.PNG|200px|Programming]]
 
| style="background:#FFFE59; color:black" align="Center"| [[Image:ProgrammingCourse_Logo.PNG|200px|Programming]]
 
|-
 
|-
 
| style="background:#FFD700; color:black" align="Center"| <span id="1.1"></span> '''Specialized'''
 
| style="background:#FFD700; color:black" align="Center"| <span id="1.1"></span> '''Specialized'''
 
| style="background:#FFFE59; color:black" | '''[[Media:FreeSurferCourse_Slicer3-4_SoniaPujol.pdf | 3D Visualization of FreeSurfer Data ]]''' <br><br> The course guides through 3D visualization of FreeSurfer brain segmentations, surface reconstruction and parcellation results in Slicer3.4.<br> <br>'''Audience''': All users.   
 
| style="background:#FFFE59; color:black" | '''[[Media:FreeSurferCourse_Slicer3-4_SoniaPujol.pdf | 3D Visualization of FreeSurfer Data ]]''' <br><br> The course guides through 3D visualization of FreeSurfer brain segmentations, surface reconstruction and parcellation results in Slicer3.4.<br> <br>'''Audience''': All users.   
| style="background:#FFFE59; color:black" | [http://www.na-mic.org/Wiki/index.php/File:FreeSurferTutorialData.zip  FreeSurferTutorialData.zip ]<br><br> The FreeSurfer dataset contains an MR scan of the brain and pre-computed FreeSurfer segmentation and cortical surface reconstructions.
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| style="background:#FFFE59; color:black" | [http://www.na-mic.org/Wiki/index.php/File:FreeSurferTutorialData.zip  '''FreeSurfer Tutorial dataset ''']<br><br> The FreeSurfer dataset contains an MR scan of the brain and pre-computed FreeSurfer segmentation and cortical surface reconstructions.
 
| style="background:#FFFE59; color:black" align="Center"| [[Image:FreeSurferTutorial.PNG|200px]]
 
| style="background:#FFFE59; color:black" align="Center"| [[Image:FreeSurferTutorial.PNG|200px]]
 
|-
 
|-

Revision as of 23:38, 21 August 2009

Home < Slicer3.4:Training

Software Installation

  • The Slicer download page contains information on how to obtain a compiled version of Slicer for a variety of platforms and where to find the source code for Slicer 3.

Software Documentation

  • For the Slicer 3.4 manual pages please click here. These pages are the reference manual for Slicer 3.4 and briefly explain the functionality found in panels and modules.

Older Versions

Slicer 3.4 Tutorials

  • The following table contains "How to" tutorials with matched sample data sets. They demonstrate how to use the 3D Slicer environment to accomplish certain tasks.
Category Tutorial Sample Data
Basic Slicer3Minute Tutorial

The Slicer3Minute tutorial is an introduction to the advanced 3D visualization capabilities of Slicer3.4.

Audience: First time users.
Slicer3Minute dataset

The Slicer3Minute dataset contains an MR scan of the brain and 3D reconstructions of the anatomy
Slicer3Minute.PNG
Core Slicer3Visualization Tutorial

The Slicer3Visualization tutorial guides through 3D data loading and visualization in Slicer3.4.

Audience: All beginning users including clinicians, scientists, engineers and programmers.
Slicer3Visualization dataset

The Slicer3VisualizationDataset contains two MR scans of the brain, a pre-computed labelmap and 3D reconstructions of the anatomy.
DataLoadingAndVisualization SPujol.png
Core Programming in Slicer3 Tutorial

The Programming in Slicer3 tutorial is an introduction to the the integration of stand-alone programs outside of the Slicer3 source tree.

Audience: Programmers and Engineers.
HelloWorld Plugin

The HelloWorld tutorial dataset contains an MR scan of the brain and pre-computed xml and C++ files for integrating the Hello World plug-in to Slicer3.
Programming
Specialized 3D Visualization of FreeSurfer Data

The course guides through 3D visualization of FreeSurfer brain segmentations, surface reconstruction and parcellation results in Slicer3.4.

Audience: All users.
FreeSurfer Tutorial dataset

The FreeSurfer dataset contains an MR scan of the brain and pre-computed FreeSurfer segmentation and cortical surface reconstructions.
FreeSurferTutorial.PNG

Slicer Tutorial Contest (under construction)

Contest Tutorial Sample Data Screenshot
Summer 2009 Confocal Microscopy (First Prize) --
Summer 2009 ARCTIC: Automatic Regional Cortical ThICkness V2.1 ARCTIC Data
Summer 2009 ‎Trans-rectal MR guided prostate biopsy --
Summer 2009 Python Stochastic Tractography Module Stochastic Tractography Data
Summer 2009 White Matter Lesions Segmentation V2.2 Lesion Segmentation Tutorial Data
Winter 2009 IA FEMesh Tutorial Mesh Tutorial Example Data
Winter 2009 Non-Human Primate Segmentation Tutorial Non-Human Primate Segmentation Data
Winter 2009 MR Guided Prostate Interventions MR Guided Prostate Interventions Data
Winter 2009 Basic Navigation Tutorial Basic Navigation Data
Winter 2009 Python Stochastic Tractography Tutorial V1.0 Stochastic Tractography Data
Winter 2009 ARCTIC: Automatic Regional Cortical ThICkness V1.0 (First Prize) ARCTIC Data
Winter 2009 White Matter Lesions Segmentation V2.0 Lesion Segmentation Tutorial Data
Winter 2009 Segmentation of the Orbit --
Winter 2009 Robotic IGT --