Difference between revisions of "Documentation/4.10/Training"
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== Slicer4 Programming Tutorial == | == Slicer4 Programming Tutorial == | ||
− | {|width="100%" | *The [https://www.dropbox.com/s/wrhrvvmplosiis1/Slicer4_ProgrammingTutorial_SPujol-SPieper_Nightly.pdf?dl=0# Slicer Programming tutorial] guides through the integration of a python module in Slicer4. | + | {|width="100%" |
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+ | *The [https://www.dropbox.com/s/wrhrvvmplosiis1/Slicer4_ProgrammingTutorial_SPujol-SPieper_Nightly.pdf?dl=0# Slicer Programming tutorial] guides through the integration of a python module in Slicer4. | ||
*Author: Sonia Pujol, Ph.D., Steve Pieper, Ph.D. | *Author: Sonia Pujol, Ph.D., Steve Pieper, Ph.D. | ||
*Audience: Developers | *Audience: Developers | ||
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==Developing and contributing extensions for 3D Slicer== | ==Developing and contributing extensions for 3D Slicer== | ||
− | {|width="100%" | *The [http://goo.gl/IP4cdg Developing and contributing extensions for 3D Slicer tutorial ] is an introduction to the internals of 3D Slicer and the process of contributing a 3D Slicer extension. | + | {|width="100%" |
+ | | | ||
+ | *The [http://goo.gl/IP4cdg Developing and contributing extensions for 3D Slicer tutorial ] is an introduction to the internals of 3D Slicer and the process of contributing a 3D Slicer extension. | ||
*Authors: Andrey Fedorov, Jean-Christophe Fillion-Robin, Steve Pieper | *Authors: Andrey Fedorov, Jean-Christophe Fillion-Robin, Steve Pieper | ||
*Audience: Developers | *Audience: Developers | ||
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* Authors: Sonia Pujol, Ph.D., Dominik Meier, Ph.D., Ron Kikinis, M.D. | * Authors: Sonia Pujol, Ph.D., Dominik Meier, Ph.D., Ron Kikinis, M.D. | ||
* Audience: Users and developers interested in image registration | * Audience: Users and developers interested in image registration | ||
− | * Dataset: | + | * Dataset: [Media:RegistrationData.zip 3D Slicer Registration Data] |
|align="right"|[[File:registration_Slicer4.png|250px]] | |align="right"|[[File:registration_Slicer4.png|250px]] | ||
|} | |} | ||
− | *Based on: 3D Slicer version 4.8 | + | *Based on: 3D Slicer version 4.8; Compatible with Slicer 4.10 |
− | + | {|width="100%" | |
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+ | *The [https://spujol.github.io/3DSlicerTutorial-Registration video tutorial] shows how to register two MRI datasets in a brain tumor case. | ||
+ | * Authors: Sonia Pujol, Ph.D., Dominik Meier, Ph.D. | ||
+ | * Audience: Users and developers interested in image registration | ||
+ | * Dataset: [Media:RegLib_C37_Data.zip | Registration Library Case #37] | ||
+ | |align="right"|[[File:RigidRegistration.jpg|250px]] | ||
+ | |} | ||
+ | *Based on: 3D Slicer version 4.10 | ||
== Slicer Registration Case Library== | == Slicer Registration Case Library== | ||
{|width="100%" | {|width="100%" | ||
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|align="right"|[[Image:RegLib_table.png|250px|link=http://wiki.slicer.org/slicerWiki/index.php/Documentation/{{documentation/version}}/Registration/RegistrationLibrary]] | |align="right"|[[Image:RegLib_table.png|250px|link=http://wiki.slicer.org/slicerWiki/index.php/Documentation/{{documentation/version}}/Registration/RegistrationLibrary]] | ||
|} | |} | ||
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=Slicer Extensions= | =Slicer Extensions= | ||
==Slicer4 Diffusion Tensor Imaging Tutorial == | ==Slicer4 Diffusion Tensor Imaging Tutorial == | ||
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{|width="100%" | {|width="100%" | ||
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− | + | *The [https://www.dropbox.com/home/Public?preview=WhiteMatterExplorationTutorial_SoniaPujol.pdf Neurosurgical Planning tutorial] course guides through the generation of fiber tracts in the vicinity of a tumor. | |
− | *The [ | ||
*Author: Sonia Pujol, Ph.D., Ron Kikinis, M.D. | *Author: Sonia Pujol, Ph.D., Ron Kikinis, M.D. | ||
*Audience: End-users and developers | *Audience: End-users and developers | ||
− | *Modules: Volumes, Editor, Tractography | + | *Modules: Volumes, Segment Editor, Tractography |
− | *Based on: 3D Slicer version 4. | + | *Based on: 3D Slicer version 4.10 |
+ | *Please visit [http://dmri.slicer.org/docs/ dmri.slicer.org/docs] for the latest documentation of SlicerDMRI. | ||
*The [[Media:WhiteMatterExplorationData.zip| White Matter Exploration dataset]] contains a Diffusion Weighted Imaging scan of brain tumor patient. | *The [[Media:WhiteMatterExplorationData.zip| White Matter Exploration dataset]] contains a Diffusion Weighted Imaging scan of brain tumor patient. | ||
|align="right"| | |align="right"| | ||
[[Image:NeurosurgicalPlanningTutorial.png|right|250px|link=http://vimeo.com/67336069]] | [[Image:NeurosurgicalPlanningTutorial.png|right|250px|link=http://vimeo.com/67336069]] | ||
|} | |} | ||
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==Slicer4 Quantitative Imaging tutorial== | ==Slicer4 Quantitative Imaging tutorial== |
Revision as of 17:00, 18 January 2019
Home < Documentation < 4.10 < Training
For the latest Slicer documentation, visit the read-the-docs. |
Introduction: Slicer 4.10 Tutorials
- This page contains "How to" tutorials with matched sample data sets. They demonstrate how to use the 3D Slicer environment (version 4.10 release) to accomplish certain tasks.
- For tutorials for other versions of Slicer, please visit the Slicer training portal.
- For "reference manual" style documentation, please visit the Slicer 4.10 documentation page
- For questions related to the Slicer4 Training Compendium, please send an e-mail to Sonia Pujol, Ph.D., Director of Training of 3D Slicer.
- Some of these tutorials are based on older releases of 3D Slicer and are being upgraded to Slicer4.10. The concepts are still useful but some interface elements and features may be different in updated versions.
Contents
Quick Start Guide
Downloading and Installing Slicer
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General Introduction
Slicer Welcome Tutorial
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Slicer4Minute Tutorial
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3D Visualization
Slicer4 Data Loading and 3D Visualization
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Slicer4 3D Visualization of DICOM images for Radiology Applications
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Tutorials for software developers
Slicer4 Programming Tutorial
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PerkLab's Slicer bootcamp training materials
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Slicer script repository
For additional Python scripts examples, please visit the Script Repository page
Developing and contributing extensions for 3D Slicer
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Segmentation
Slicer4 Image Segmentation
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Registration
Slicer4 Image Registration
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- Based on: 3D Slicer version 4.8; Compatible with Slicer 4.10
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- Based on: 3D Slicer version 4.10
Slicer Registration Case Library
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Slicer Extensions
Slicer4 Diffusion Tensor Imaging Tutorial
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Slicer4 Neurosurgical Planning Tutorial
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Slicer4 Quantitative Imaging tutorial
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Slicer4 IGT
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Slicer4 Radiation Therapy Tutorial
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Slicer Pathology
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SPHARM-PDM
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Fiber Bundle Volume Measurement
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3D Slicer version 4.7 Tutorial Contest
For previous editions of the contest, please visit the 3D Slicer Tutorial Contests page
Segmentation for 3D printing
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Slicer Pathology
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Simple Python Tool for Quality Control of DWI data
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SPHARM-PDM
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Integration of Robot Operating System (ROS) and 3D Slicer using OpenIGTLink
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Fiber Bundle Volume Measurement
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YouTube videos
Additional non-curated videos-based demonstrations using 3D Slicer are accessible on YouTube.
Teams Contributions
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International resources
Resources in Chinese
A 3D Slicer community on WeChat in China offers many tutorials and clinical examples in Chinese. Note that the images are of interest to non-Chinese speakers and Google Translate does a reasonable job of translating some of the text. |
Resources in German
- A series of four YouTube videos on python programming in Slicer (German narration with English subtitles)
Murat Maga's blog posts about using 3D Slicer for biology
Using the (legacy) Editor
Fast GrowCut
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Use case: Slicer in paleontology
This set of tutorials about the use of slicer in paleontology is very well written and provides step-by-step instructions. Even though it covers slicer version 3.4, many of the concepts and techniques have applicability to the new version and to any 3D imaging field:
- Open Source Paleontologist: 3D Slicer: The Tutorial
- Open Source Paleontologist: 3D Slicer: The Tutorial Part II
- Open Source Paleontologist: 3D Slicer: The Tutorial Part III
- Open Source Paleontologist: 3D Slicer: The Tutorial Part IV
- Open Source Paleontologist: 3D Slicer: The Tutorial Part V
- Open Source Paleontologist: 3D Slicer: The Tutorial Part VI