sonia pujol, ph.d. brigham and women’s hospital harvard medical school slicer welcome - sonia...
TRANSCRIPT
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Sonia Pujol, Ph.D.
Brigham and Women’s Hospital
Harvard Medical School
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Slicer Welcome Tutorial
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GoalThis tutorial is a short introduction to the Welcome module of
the 3D Slicer open-source software.
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Slicer4 Basics
Slicer is an open-source software for segmentation, registration and visualization of medical imaging data
The platform is developed through a multi-institution effort of several NIH funded large-scale consortia
Slicer is for medical research only, and is not FDA approved
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Slicer4 Basics
Slicer4 contains 92 modules for image segmentation, registration and 3D visualization of medical imaging data.
Images courtesy of Ron Kikinis, MD
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Supported Platforms
Slicer is a multi-platform software developed and maintained on Mac OSX, Linux 64 & 32, and Windows 64 & 32.
Slicer requires a minimum of 2 GB of RAM and a dedicated graphic accelerator with 64 MB of on-board graphic memory.
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3DSlicer version 4.0
The Welcome module is the default start-up module.
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Welcome to Slicer
Each module of Slicer includes a series of tabs, which give access to different functionalities.Click on the arrow symbol to display the content of each tab.
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Slicer Welcome
The Main Window tab contains information on the basic organization of Slicer’s user interface.
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Slicer User Interface Main Menu
3D viewer
2D anatomical viewers
User Interface (UI) panel
of the Slicer Welcome Module
Data Probe
Toolbar
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Welcome Module
The Tutorials & Information tab contains links to the Slicer4 training compendium and documentation.
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Slicer4.0 Documentation &Training
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http://www.slicer.org/slicerWiki/index.php/Documentation/4.0/Training
http://www.slicer.org/slicerWiki/index.php/Documentation/4.0
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Welcome ModuleThe Welcome module panel contains shortcuts for loading different types of data. A series of sample data are also available.
Click on Download Sample Data to access the Sample Data Module
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Sample Data
The Sample Data module contains links to six different sample datasets that can be downloaded into Slicer.
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Sample Data
Brain MRI
Chest CT
Cardiac CT
Diffusion Tensor Imaging (DTI) Dataset
Brain MRI (tumor patient)
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Sample Data
Click on Download MRHead to download the dataset in Slicer.
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Welcome Module
The MR scan of the brain appears in the 2D viewers.
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MR Brain Sample Dataset
Click on the pin icon at the top left corner of the red viewer to display the viewer menu
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MR Brain Sample Dataset
Click on the link icon to link all three 2D viewers, and on the eye icon next to it to display the slices in the 3D viewer.
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MR Brain Sample Dataset
The axial, coronal and sagittal slices appear in the 3D viewer.
Go back to the Welcome module using the green arrow in the toolbar.
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MR Brain Sample Dataset
Click on the tab Mouse & Keyboard to learn the different mouse actions to rotate the images and zoom in and out.
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Going Further
To learn more about Slicer and its different functionalities, visit the Slicer4.0 training compendium.
http://www.slicer.org/slicerWiki/index.php/Documentation/4.0/Training
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Acknowledgments
National Alliance for Medical Image ComputingNIH U54EB005149
Neuroimage Analysis Center NIH P41RR013218
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