Difference between revisions of "Documentation/Nightly/Training"
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[[Image:HelloPythonTutorial.png|right|250px|]] | [[Image:HelloPythonTutorial.png|right|250px|]] | ||
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+ | |||
+ | == PerkLab's Slicer bootcamp training materials == | ||
+ | {|width="100%" | ||
+ | | | ||
+ | *The [http://perk.cs.queensu.ca/ Laboratory for Percutaneous Surgery at Queen's University] has made available training material of its internal yearly bootcamp, covering topics, such as 3D Slicer overview, basic visualization, segmentation, registration, scripting and module development, surgical navigation, DICOM, reproducible medical image computing research methodology, version control, and research project management. | ||
+ | ** [https://github.com/PerkLab/PerkLabBootcamp/blob/master/Doc/day3_2_SlicerProgramming.pptx?raw=true Scripting and module development tutorial] | ||
+ | ** [https://github.com/PerkLab/PerkLabBootcamp/tree/master/Doc All other tutorials] | ||
+ | *Author: Andras Lasso, Csaba Pinter, Tamas Ungi, Csaba Pinter, Matthew Holden, Kyle Sunderland | ||
+ | *Audience: Developers, Users | ||
+ | *Based on: 3D Slicer version 4.8 | ||
+ | |align="right"| | ||
+ | [[Image:PerkLabSlicerProgrammingTutorial.png|right|250px|]] | ||
+ | |} | ||
+ | |||
+ | == Slicer script repository == | ||
For additional Python scripts examples, please visit the [[Documentation/{{documentation/version}}/ScriptRepository|Script Repository page]] | For additional Python scripts examples, please visit the [[Documentation/{{documentation/version}}/ScriptRepository|Script Repository page]] | ||
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* Segmentation for 3D printing: shows how to use the Segment Editor module for combining CAD designed parts with patient-specific models. | * Segmentation for 3D printing: shows how to use the Segment Editor module for combining CAD designed parts with patient-specific models. | ||
+ | ** '''[https://discourse.slicer.org/t/new-video-tutorial-for-segment-editor-lumbar-spine-segmentation-for-3d-printing/700 Video tutorial]'''. Author: Hillary Lia. | ||
** '''[[Documentation/{{documentation/version}}/Training#Segmentation_for_3D_printing|Segmentation for 3D printing Step-by-step tutorial]]'''. Author: Csaba Pinter, MSc | ** '''[[Documentation/{{documentation/version}}/Training#Segmentation_for_3D_printing|Segmentation for 3D printing Step-by-step tutorial]]'''. Author: Csaba Pinter, MSc | ||
** Audience: Users and developers interested in segmentation and 3D printing | ** Audience: Users and developers interested in segmentation and 3D printing | ||
+ | ** Dataset: [[:File:BasePiece.zip|Phantom base STL model]] Source: [http://perk-software.cs.queensu.ca/plus/doc/nightly/modelcatalog/ PerkLab]. | ||
** Based on: 3D Slicer version 4.7 | ** Based on: 3D Slicer version 4.7 | ||
|align="right"|[[Image:20170717_3DPrintingTutorialYoutube.PNG|280px]] | |align="right"|[[Image:20170717_3DPrintingTutorialYoutube.PNG|280px]] | ||
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** Author: Andras Lasso, PhD | ** Author: Andras Lasso, PhD | ||
** Audience: Users who need to segment heart structures, for example for visualization, quantification, or simulation. | ** Audience: Users who need to segment heart structures, for example for visualization, quantification, or simulation. | ||
− | ** | + | ** Sample data set: http://slicer.kitware.com/midas3/download/bitstream/738905/CTA-cardio2.nrrd |
** Based on: 3D Slicer version 4.8 | ** Based on: 3D Slicer version 4.8 | ||
|align="right"|[[Image:WholeHeartSegYoutube.png|280px]] | |align="right"|[[Image:WholeHeartSegYoutube.png|280px]] | ||
+ | |--- | ||
+ | | | ||
+ | * '''[https://youtu.be/0at15gjk-Ns Video tutorial: Femur and pelvis segmentation from CT]''' shows how to use the Segment Editor module for segmenting pelvis and femur from CT volumes. | ||
+ | ** Author: Andras Lasso, PhD | ||
+ | ** Audience: Users who need to segment bones in CT images for visualization, quantification, or simulation. | ||
+ | ** Sample data set: https://wiki.cancerimagingarchive.net/display/Public/TCGA-PRAD (Subject TCGA-VP-A878) | ||
+ | ** Based on: 3D Slicer version 4.8 | ||
+ | |align="right"|[[Image:FemurSegmentationYoutube.png|280px]] | ||
+ | |--- | ||
+ | | | ||
+ | * [https://lassoan.github.io/SlicerSegmentationRecipes/ Slicer Segmentation Recipes] | ||
|} | |} | ||
Revision as of 14:02, 22 November 2018
Home < Documentation < Nightly < Training
For the latest Slicer documentation, visit the read-the-docs. |
Introduction: Slicer Nightly Tutorials
- This page contains "How to" tutorials with matched sample data sets. They demonstrate how to use the 3D Slicer environment (version Nightly 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 Nightly 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
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