Difference between revisions of "Documentation/4.8/Training"
(7 intermediate revisions by the same user not shown) | |||
Line 29: | Line 29: | ||
{|width="100%" | {|width="100%" | ||
| | | | ||
− | *The [ | + | *The [https://www.dropbox.com/s/vn8sqlof2kag2kk/SlicerWelcome-tutorial_Slicer4.8_SoniaPujol.pdf?dl=0| SlicerWelcome tutorial] is an introduction to Slicer based on the Welcome module. |
*Author: Sonia Pujol, Ph.D. | *Author: Sonia Pujol, Ph.D. | ||
*Audience: First time users who want a general introduction to the software. | *Audience: First time users who want a general introduction to the software. | ||
*Modules: Welcome to Slicer, Sample Data | *Modules: Welcome to Slicer, Sample Data | ||
− | *Based on: 3D Slicer version 4. | + | *Based on: 3D Slicer version 4.8 |
|align="right"| | |align="right"| | ||
[[image:SlicerWelcome-image.png|250px|SlicerWelcome tutorial]] | [[image:SlicerWelcome-image.png|250px|SlicerWelcome tutorial]] | ||
Line 131: | Line 131: | ||
{|width="100%" | {|width="100%" | ||
| | | | ||
− | *The [https://www. | + | *The [https://www.dropbox.com/s/chrugp2j2as5gop/ImageRegistration_Slicer4.8_SoniaPujol.pdf?dl=0 Registration tutorial] shows how to perform intra- and inter-subject registration within Slicer. |
* 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 | ||
Line 137: | Line 137: | ||
|align="right"|[[File:registration_Slicer4.png|250px]] | |align="right"|[[File:registration_Slicer4.png|250px]] | ||
|} | |} | ||
− | *Based on: 3D Slicer version 4. | + | *Based on: 3D Slicer version 4.8 |
See [[Documentation/{{documentation/version}}/Registration/RegistrationLibrary|the Registration Library for worked out registration examples with data]]. | See [[Documentation/{{documentation/version}}/Registration/RegistrationLibrary|the Registration Library for worked out registration examples with data]]. | ||
Line 154: | Line 154: | ||
| | | | ||
*Please visit [http://dmri.slicer.org/docs/ dmri.slicer.org/docs] for the latest documentation of SlicerDMRI. | *Please visit [http://dmri.slicer.org/docs/ dmri.slicer.org/docs] for the latest documentation of SlicerDMRI. | ||
− | *The [ | + | *The [https://www.dropbox.com/s/m7rzeblbdzr49bc/DiffusionMRIAnalysis_Slicer4.8_SoniaPujol.pdf?dl=0| Diffusion Tensor Imaging] course is an introduction to the basics of loading Diffusion Weighted images in Slicer, estimating tensors and generating fiber tracts. |
*Author: Sonia Pujol, Ph.D. | *Author: Sonia Pujol, Ph.D. | ||
*Audience: End-users and developers | *Audience: End-users and developers | ||
*Modules: Data, Volumes, DWI to DTI Estimation, Diffusion Tensor Scalar Measurements, Editor, Markups,Tractography Label Map Seeding, Tractography Interactive Seeding | *Modules: Data, Volumes, DWI to DTI Estimation, Diffusion Tensor Scalar Measurements, Editor, Markups,Tractography Label Map Seeding, Tractography Interactive Seeding | ||
− | *Based on: 3D Slicer version 4. | + | *Based on: 3D Slicer version 4.8 |
*The [[media:Dti tutorial data.zip|DTI dataset]] contains an MR Diffusion Weighted Imaging scan of the brain. | *The [[media:Dti tutorial data.zip|DTI dataset]] contains an MR Diffusion Weighted Imaging scan of the brain. | ||
|align="right"| | |align="right"| | ||
Line 250: | Line 250: | ||
|} | |} | ||
− | = 3D Slicer Tutorial | + | = 3D Slicer version 4.7 Tutorial Contest= |
− | + | For previous editions of the contest, please visit the [https://na-mic.org/wiki/Tutorial_Contests 3D Slicer Tutorial Contests page] | |
===Segmentation for 3D printing=== | ===Segmentation for 3D printing=== | ||
Line 313: | Line 313: | ||
|align="right"| | |align="right"| | ||
[[File:SlicerWinterProjectWeek2017-FiberBundleVolumeMeasurements.png | 200px]]. | [[File:SlicerWinterProjectWeek2017-FiberBundleVolumeMeasurements.png | 200px]]. | ||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
|} | |} | ||
Revision as of 14:50, 15 August 2018
Home < Documentation < 4.8 < Training
For the latest Slicer documentation, visit the read-the-docs. |
Introduction: Slicer 4.8 Tutorials
- This page contains "How to" tutorials with matched sample data sets. They demonstrate how to use the 3D Slicer environment (version 4.8 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 4.8 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. The concepts are still useful but bear in mind that some interface elements and features will be different in updated versions.
Contents
Quick Start Guide
Downloading and Installing Slicer
|
General Introduction
Slicer Welcome Tutorial
|
Slicer4Minute Tutorial
|
3D Visualization
Slicer4 Data Loading and 3D Visualization
|
Slicer4 3D Visualization of DICOM images for Radiology Applications
|
Programming
Slicer4 Programming Tutorial
|
For additional Python scripts examples, please visit the Script Repository page
Developing and contributing extensions for 3D Slicer
|
Segmentation
Slicer4 Image Segmentation
|
|
|
Registration
Slicer4 Image Registration
|
- Based on: 3D Slicer version 4.8
See the Registration Library for worked out registration examples with data.
Slicer Registration Case Library
|
Slicer Extensions
Slicer4 Diffusion Tensor Imaging Tutorial
|
Slicer4 Neurosurgical Planning Tutorial
|
Slicer4 Quantitative Imaging tutorial
|
Slicer4 IGT
|
Slicer4 Radiation Therapy Tutorial
|
Slicer Pathology
|
SPHARM-PDM
|
Fiber Bundle Volume Measurement
|
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
|
Slicer Pathology
|
Simple Python Tool for Quality Control of DWI data
|
SPHARM-PDM
|
Integration of Robot Operating System (ROS) and 3D Slicer using OpenIGTLink
|
Fiber Bundle Volume Measurement
|
Teams Contributions
|
|
See the collection of videos on the Kitware vimeo album.
External Resources
Non-curated videos
Additional non-curated videos-based demonstrations using 3D Slicer are accessible on You Tube.
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
|
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