Slicer3:BrainLab Integration - Revision history

Hliu: /* STEP 4: Visualize DTI in Slicer3 */

2009-02-15T21:56:51Z

STEP 4: Visualize DTI in Slicer3

2009-02-15T21:54:26Z

STEP 4: Visualize DTI in Slicer3

2009-02-15T21:53:13Z

STEP 4: Visualize DTI in Slicer3

2009-02-15T21:51:07Z

STEP 1: Download and Install Software Packages

2009-02-15T19:31:15Z

2009-02-15T16:42:19Z

STEP 2: Set up the System

2009-02-15T16:31:57Z

STEP 1: Download and Install Software Packages

2009-02-15T16:23:51Z

STEP 1: Download and Install Software Packages

2009-02-15T16:18:50Z

STEP 1: Download and Install Software Packages

2009-02-15T16:14:56Z

Introduction

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 = '''STEP 4:''' Visualize DTI in Slicer3 =
 *The tutorial, '''Processing of Diffusion Weighted Imaging and Diffusion Tensor Imaging data in Slicer3''', and sample data sets for processing DTI images in Slicer3 can be found at http://www.na-mic.org/Wiki/index.php/Slicer3.2:Training (see module No. 1.4)
-*The procedure to visualize DTI tractography: In progress
+*The procedure to visualize DTI tractography while tracking by BrainLab is described in [[media:dti_vis_brainlab_bioimage_slicer3.ppt|this file]]
 <br>

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 = '''STEP 4:''' Visualize DTI in Slicer3 =
-*The tutorial, Processing of Diffusion Weighted Imaging and Diffusion Tensor Imaging data in Slicer3, and sample data sets for processing DTI images in Slicer3 can be found at http://www.na-mic.org/Wiki/index.php/Slicer3.2:Training (see module No. 1.4)
+*The tutorial, '''Processing of Diffusion Weighted Imaging and Diffusion Tensor Imaging data in Slicer3''', and sample data sets for processing DTI images in Slicer3 can be found at http://www.na-mic.org/Wiki/index.php/Slicer3.2:Training (see module No. 1.4)
 *The procedure to visualize DTI tractography: In progress
 <br>

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 = '''STEP 4:''' Visualize DTI in Slicer3 =
-*The tutorial (called ...) and sample data sets for processing DTI images in Slicer3 can be found at http://www.na-mic.org/Wiki/index.php/Slicer3.2:Training (see module number ...)
+*The tutorial, Processing of Diffusion Weighted Imaging and Diffusion Tensor Imaging data in Slicer3, and sample data sets for processing DTI images in Slicer3 can be found at http://www.na-mic.org/Wiki/index.php/Slicer3.2:Training (see module No. 1.4)
 *The procedure to visualize DTI tractography: In progress
 <br>

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 * Install Slicer3
 ** Slicer3 binary download site: http://www.slicer.org/DownloadSlicer.php/Nightly
-*** Choose one of the available (and dated) versions for your system and download it
+** Choose one of the available (and dated) versions for your system and download it
-*** For Windows users, run the installer to install Slicer3 on your Windows XP computer. For Linux users, unzip the binary to your preferred location
+** For Windows users, run the installer to install Slicer3 on your Windows XP computer. For Linux users, unzip the binary to your preferred location
 <br>

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 <br>
-= '''STEP 3:''' Testing the System =
+= '''STEP 3:''' Test the System =
 * Testing the individual components and the interoperation of the components should be done during setup to ensure proper operation of the research part of the setup. In order to test the clinical part of the brain lab system, please follow the vendor guidelines.
-* To test Slicer....
+* Steps to test the system connectivity can be found in [[media:system_test_brainlab_bioimage_slicer3.ppt|this file]]
-* To test BioImage Suite ...
+<br>
 = '''STEP 4:''' Visualize DTI in Slicer3 =

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 = '''STEP 2:''' Set up the System =
-* The computers running the BrainLab system and the one running Slicer3 should be connected through a Ethernet network or a router. We are using a router (e.g. Netgear) for this purpose.
+* The computers running the BrainLab system and the one running Slicer3 should be connected through a Ethernet network or a router. We have been testing the system in OR with a wired router (e.g. Netgear or Linsys).
 * Steps to set up the system can be found in [[media:system_setup_brainlab_bioimage_slicer3.ppt|this file]]
 <br>

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 = '''STEP 1:''' Download and Install Software Packages =
 Slicer3 connects with BrainLab navigation system through BioImage Suite, which is an integrated image analysis software suite developed at Yale University. Thus, we will install both BioImage Suite and Slicer3 on a designated machine.
-* Get a decent computer with a minimum of 2GB of RAM and a Graphics Card with at least 256MB of dedicated graphics memory. For Windows users, the computer should have Windows XP Pro installed. We have used NVIDIA graphics cards with good success.
+* Get a decent computer with a minimum of 2GB of RAM and a Graphics Card with at least 256MB of dedicated graphics memory. For Windows users, the computer should have Windows XP Pro installed. For Linux users, Ubuntu 8.04 is used as the testbed. We have used NVIDIA graphics cards with good success.
 * Install BioImage Suite
 ** The latest binary of BioImage Suite (2.6 Release Candidate 1) can be installed from here: http://research.yale.edu/bioimagesuite/forum/index.php?topic=257.msg

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 *Slicer3 is not an FDA approved product and we make no claims on specific capabilities. It is the surgeon's responsibility to ensure that Slicer3 will perform whatever tasks s/he is trying to do and to ensure that s/he is in compliance with applicable laws, rules, and regulations.
-*This tutorial is being developed and tested on Windows XP. If you are using a different OS (e.g. Linux, or Mac), please share your experience with us.
+*This tutorial is being developed and tested on Windows XP and Linux. If you are using a Mac, please share your experience with us.
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