Difference between revisions of "StonyBrook Workshop"
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=Workshop Organizers= | =Workshop Organizers= | ||
* [https://www.spl.harvard.edu/pages/People/spujol Sonia Pujol, Ph.D., Brigham and Women's Hospital, Harvard Medical School ] | * [https://www.spl.harvard.edu/pages/People/spujol Sonia Pujol, Ph.D., Brigham and Women's Hospital, Harvard Medical School ] | ||
| + | * email: spujol at bwh.harvard.edu | ||
=Local Host= | =Local Host= | ||
| − | * [ | + | * [https://www.cs.stonybrook.edu/people/faculty/AllenTannenbaum Allen Tannenbaum, Ph.D., Departments Computer Science and Applied Mathematics, Stony Brook University] |
* [https://medicine.stonybrookmedicine.edu/radiology/mary-saltz Mary Saltz, M.D., Department of Radiology, Stony Brook School of Medicine] | * [https://medicine.stonybrookmedicine.edu/radiology/mary-saltz Mary Saltz, M.D., Department of Radiology, Stony Brook School of Medicine] | ||
=Tentative Agenda= | =Tentative Agenda= | ||
*9:30-9:40 am Welcome and Goals of the Workshop (Mary Saltz) | *9:30-9:40 am Welcome and Goals of the Workshop (Mary Saltz) | ||
| − | *9:40-10:00 am Introduction to the 3D Slicer software and community (Sonia Pujol) | + | *9:40-10:00 am [[media:3DSlicer_2016_SoniaPujol.pdf | Introduction to the 3D Slicer software and community ]](Sonia Pujol) |
| − | *10:00-11:15 am Hands-on session 1: 3D Data Loading and Visualization (Sonia Pujol) | + | *10:00-11:15 am [[media:3DDataLoadingandVisualization_Slicer4.5_SoniaPujol.pdf| Hands-on session 1: 3D Data Loading and Visualization]] (Sonia Pujol) |
*11:15-11:30 am Coffee Break | *11:15-11:30 am Coffee Break | ||
| − | *11:30-12:30 pm Hands on session 2: Basics of Image Registration (Sonia Pujol) | + | *11:30-12:30 pm [[media:RegistrationTutorial_3DSlicer4.5_spujol.pdf | Hands on session 2: Basics of Image Registration]] (Sonia Pujol) |
*12:30-1:30 pm Lunch | *12:30-1:30 pm Lunch | ||
| − | *1:30 pm -2:45 pm An Introduction to Diffusion Tensor Imaging (Sonia Pujol) | + | *1:30 pm -2:45 pm [[media: DiffusionMRIanalysisTutorial_Slicer4.5_SoniaPujol.pdf | Hands-on session 3: An Introduction to Diffusion Tensor Imaging]] (Sonia Pujol) |
*2:45 pm -3:00 pm Coffee Break | *2:45 pm -3:00 pm Coffee Break | ||
| − | *3:00-4:00 pm Brain Mapping for Neurosurgery (Sonia Pujol) | + | *3:00-4:00 pm [[media:WhiteMatterExplorationTutorial_Spujol_Slicer4.5.pdf | Hands-on session 4: Brain Mapping for Neurosurgery]] (Sonia Pujol) |
*4:00-4:30 pm Questions from the audience and concluding remarks | *4:00-4:30 pm Questions from the audience and concluding remarks | ||
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* Location: Department of Biomedical Informatics, Stony Brook University | * Location: Department of Biomedical Informatics, Stony Brook University | ||
* Workshop Materials: In preparation for the hands-on sessions, please download the following software and datasets: | * Workshop Materials: In preparation for the hands-on sessions, please download the following software and datasets: | ||
| − | *Software: | + | *Software: 3D Slicer version 4.5: |
| − | **[https://www.dropbox.com/s/ayb7mtqb21w9zgz/Slicer-4.5.0-2016-04-11-linux-amd64.tar.gz?dl=0 Slicer4.5 (Linux) | + | **[https://www.dropbox.com/s/ayb7mtqb21w9zgz/Slicer-4.5.0-2016-04-11-linux-amd64.tar.gz?dl=0 Slicer4.5 (Linux)] |
| − | **[https://www.dropbox.com/s/bt3lnns2gbq2l16/Slicer-4.5.0-2016-04-11-macosx-amd64.dmg?dl=0 Slicer4.5 (MacOSX) | + | **[https://www.dropbox.com/s/bt3lnns2gbq2l16/Slicer-4.5.0-2016-04-11-macosx-amd64.dmg?dl=0 Slicer4.5 (MacOSX)] |
**[https://www.dropbox.com/s/ygm8xuybqlu7am9/Slicer-4.5.0-2016-04-11-win-amd64.exe?dl=0 Slicer4.5 (Windows)] | **[https://www.dropbox.com/s/ygm8xuybqlu7am9/Slicer-4.5.0-2016-04-11-win-amd64.exe?dl=0 Slicer4.5 (Windows)] | ||
*Datasets: | *Datasets: | ||
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**[[Media:WhiteMatterExplorationData.zip|White Matter Exploration dataset]] | **[[Media:WhiteMatterExplorationData.zip|White Matter Exploration dataset]] | ||
**[[Media:RegistrationData.zip|Registration dataset]] | **[[Media:RegistrationData.zip|Registration dataset]] | ||
| + | |||
| + | * [https://www.slicer.org/publications/item/view/2037 Brain Anatomy Atlas ] | ||
Latest revision as of 01:09, 21 April 2016
Home < StonyBrook Workshop
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Introduction
The 3D Slicer Stony Brook workshop is a full day course that will combine a series of lectures and hands-on sessions using the 3D Slicer software. The morning session will provide an introduction to the basics of data loading, 3D visualization and image registration. The afternoon session will focus on fundamental and practical aspects of Diffusion MRI analysis.
Workshop Organizers
- Sonia Pujol, Ph.D., Brigham and Women's Hospital, Harvard Medical School
- email: spujol at bwh.harvard.edu
Local Host
- Allen Tannenbaum, Ph.D., Departments Computer Science and Applied Mathematics, Stony Brook University
- Mary Saltz, M.D., Department of Radiology, Stony Brook School of Medicine
Tentative Agenda
- 9:30-9:40 am Welcome and Goals of the Workshop (Mary Saltz)
- 9:40-10:00 am Introduction to the 3D Slicer software and community (Sonia Pujol)
- 10:00-11:15 am Hands-on session 1: 3D Data Loading and Visualization (Sonia Pujol)
- 11:15-11:30 am Coffee Break
- 11:30-12:30 pm Hands on session 2: Basics of Image Registration (Sonia Pujol)
- 12:30-1:30 pm Lunch
- 1:30 pm -2:45 pm Hands-on session 3: An Introduction to Diffusion Tensor Imaging (Sonia Pujol)
- 2:45 pm -3:00 pm Coffee Break
- 3:00-4:00 pm Hands-on session 4: Brain Mapping for Neurosurgery (Sonia Pujol)
- 4:00-4:30 pm Questions from the audience and concluding remarks
Logistics
- Date: Thursday April 14, 2016
- Location: Department of Biomedical Informatics, Stony Brook University
- Workshop Materials: In preparation for the hands-on sessions, please download the following software and datasets:
- Software: 3D Slicer version 4.5:
- Datasets:
