| Deletions are marked like this. | Additions are marked like this. |
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| * Soon, version 3 of 3D Slicer will become available. When this is available, this command will be used to start it: | * Soon, [http://www.na-mic.org/Slicer/Download/Snapshots/ version 3] of 3D Slicer will become available. When this is available, this command will be used to start it: |
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| Remember that you do not need to install 3D Slicer if you are connected to the NMR Center network (see above). If you want to install 3D Slicer on your non-networked computer, follow the 'Get the Software' link on the [http://www.slicer.org 3D Slicer home page]. Or, if you are feeling brave, you can go directly to the [http://www.na-mic.org/Slicer/Download/Release/ 'official release' binary download site], or the [http://www.na-mic.org/Slicer/Download/Snapshots/ 'alpha release' binary download site], and get the tarball. | Remember that you do not need to install 3D Slicer if you are connected to the NMR Center network (see above). |
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| == Work Flows == |
If you want to install 3D Slicer on your non-networked computer, go to the [http://www.na-mic.org/Wiki/index.php/Slicer:Slicer2.6_Getting_Started Slicer2.6_Getting_Started] page and follow the simple instructions for your machine. === Work Flows == |
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= Usage == To learn more about using Slicer, refer to the [http://www.na-mic.org/Wiki/index.php/Slicer:Workshops:User_Training_101 Slicer_User_Training_101] page which contains self-guided tutorials and sample data for Slicer2.6. Specifically, the [http://www.na-mic.org/Wiki/images/4/4e/SlicerTraining6_vtkFreeSurferReaders.ppt Slicer Training 6: vtkFreeSurferReaders Module tutorial] will teach you how to visualize Freesurfer generated subcortical segmentations and cortical parcellations both as color coded shading and as 3D models. Here is a screenshot: |
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| attach:FreesurferSlicer1.jpg-2.0 |
3D Slicer
[http://www.slicer.org 3D Slicer] is a software program for visualization, registration, segmentation, and quantification of medical data. It is devloped as a collaboration between the MIT AI Lab and the Surgical Planning Lab at Brigham & Women's Hospital. The 3D Slicer homepage is [http://www.slicer.org http://www.slicer.org].
MGH NMR Center Installation
Within the MGH NMR Center, 3D Slicer is already installed on the network for both the Linux and Mac OS (PowerPC and Intel) platforms. You start 3D Slicer v2.6, which is the current stable version, by typing:
slicer2
Notes:
- A command named 'slicer' exists in the FSL toolset, and is completely unrelated to the 3D Slicer application, so remember not to confuse the two.
- 'slicer2' is a wrapper-script found in /usr/pubsw/bin, which starts the stable version 2.# of 3D Slicer for the platform you are using. Older and alpha versions of 3D Slicer are found in /usr/pubsw/packages/slicer. The one considered the most stable (and launched via 'slicer2') is found in /usr/pubsw/packages/slicer/current.
Soon, [http://www.na-mic.org/Slicer/Download/Snapshots/ version 3] of 3D Slicer will become available. When this is available, this command will be used to start it:
slicer3
Download
Remember that you do not need to install 3D Slicer if you are connected to the NMR Center network (see above).
If you want to install 3D Slicer on your non-networked computer, go to the [http://www.na-mic.org/Wiki/index.php/Slicer:Slicer2.6_Getting_Started Slicer2.6_Getting_Started] page and follow the simple instructions for your machine.
=== Work Flows == See the SlicerWorkFlows page.
= Usage == To learn more about using Slicer, refer to the [http://www.na-mic.org/Wiki/index.php/Slicer:Workshops:User_Training_101 Slicer_User_Training_101] page which contains self-guided tutorials and sample data for Slicer2.6. Specifically, the [http://www.na-mic.org/Wiki/images/4/4e/SlicerTraining6_vtkFreeSurferReaders.ppt Slicer Training 6: vtkFreeSurferReaders Module tutorial] will teach you how to visualize Freesurfer generated subcortical segmentations and cortical parcellations both as color coded shading and as 3D models. Here is a screenshot:
attach:FreesurferSlicer1.jpg-2.0