Difference between revisions of "Plug-In 3D Viewer based on XIP"

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(Created page with '__NOTOC__ <gallery> Image:PW2009-v3.png|Project Week Main Page Image:genuFAp.jpg|Scatter plot of the original FA data through the genu of the corpus ...')
 
 
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Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
 
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
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Image:genuFAp.jpg|Scatter plot of the original FA data through the genu of the corpus callosum of a normal brain.
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Image:Xipexample.jpg|[http://openxip.org/ XIP: eXtensible Imaging Platform]
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Image:genuFA.jpg|Regression of FA data; solid line represents the mean and dotted lines the standard deviation.
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Image:SlicerImage_lut_1.jpg|Volume Rendering in Slicer using XIP
 
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==Instructions for Use of this Template==
 
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#Please create a new wiki page with an appropriate title for your project using the convention Project/<Project Name>
 
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#Copy the entire text of this page into the page created above
 
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#Link the created page into the list of projects for the project event
 
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#Delete this section from the created page
 
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#Send an email to tkapur at bwh.harvard.edu if you are stuck
 
  
 
==Key Investigators==
 
==Key Investigators==
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* UNC: Isabelle Corouge, Casey Goodlett, Guido Gerig
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* Siemens Corporate Research: Lining Yang, Melanie Grebe
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* Utah: Tom Fletcher, Ross Whitaker
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* Steve Pieper
  
 
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<h3>Our Objective</h3>
 
<h3>Our Objective</h3>
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We are developing methods for analyzing diffusion tensor data along fiber tracts. The goal is to be able to make statistical group comparisons with fiber tracts as a common reference frame for comparison.
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Our objective is to create a new 3D Slicer Plug-in based on NCI's eXtensible Imaging Platform (XIP), which can then be used as a starting point for future projects involving NA-MIC and caBIG.
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<h3>Our Approach, Plan</h3>
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<h3>Our Approach and Plan</h3>
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Our approach for analyzing diffusion tensors is summarized in the IPMI 2007 reference below.  The main challenge to this approach is <foo>.
 
  
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Our plan for the project week is to first try out <bar>,...
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We will implement a Host/Plug-in interface API that leverages the use of XIP modules (based on Open Inventor), and as a first example we will implement a simple 3D Viewer that can load and display DICOM data and visualize/navigate it using 3 synchronized MPR windows and a 3D volume rendering window, with the ability to render fused MR brain data.
  
 
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<h3>Our Progress</h3>
 
<h3>Our Progress</h3>
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Software for the fiber tracking and statistical analysis along the tracts has been implemented. The statistical methods for diffusion tensors are implemented as ITK code as part of the [[NA-MIC/Projects/Diffusion_Image_Analysis/DTI_Software_and_Algorithm_Infrastructure|DTI Software Infrastructure]] project. The methods have been validated on a repeated scan of a healthy individual. This work has been published as a conference paper (MICCAI 2005) and a journal version (MEDIA 2006). Our recent IPMI 2007 paper includes a nonparametric regression method for analyzing data along a fiber tract.
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We implemented a prototype that directly embedded the XIP in the existing Volume Rendering Module of the 3D Slicer where we take the output volume and other parameters from Slicer/VTK and use them to build and render an XIP scenegraph using XIP's volume rendering nodes.
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Future work:
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During the week we talked to Ron, Steve, Jim and many others to explore other ways of integrating the XIP and 3D Slicer. Among them are: (1) Uses the socket connection / Slicer Daemon to establish a host/plug-in architecture where we can leverage the strength of both the XIP/slicer world. One example is that XIP serves as a Dicom explorer host and slicer as a post-processing plugin. (2) Uses XIP to help the users to further process / perform visual programming of for example the slicer command line module results.
  
  
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==References==
 
==References==
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*Fletcher P, Tao R, Jeong W, Whitaker R. [http://www.na-mic.org/publications/item/view/634 A volumetric approach to quantifying region-to-region white matter connectivity in diffusion tensor MRI.] Inf Process Med Imaging. 2007;20:346-358. PMID: 17633712.
 
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* Corouge I, Fletcher P, Joshi S, Gouttard S, Gerig G. [http://www.na-mic.org/publications/item/view/292 Fiber tract-oriented statistics for quantitative diffusion tensor MRI analysis.] Med Image Anal. 2006 Oct;10(5):786-98. PMID: 16926104.
 
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* Corouge I, Fletcher P, Joshi S, Gilmore J, Gerig G. [http://www.na-mic.org/publications/item/view/1122 Fiber tract-oriented statistics for quantitative diffusion tensor MRI analysis.] Int Conf Med Image Comput Comput Assist Interv. 2005;8(Pt 1):131-9. PMID: 16685838.
 
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* Goodlett C, Corouge I, Jomier M, Gerig G, A Quantitative DTI Fiber Tract Analysis Suite, The Insight Journal, vol. ISC/NAMIC/ MICCAI Workshop on Open-Source Software, 2005, Online publication: http://hdl.handle.net/1926/39 .
 
  
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* [http://wiki.na-mic.org/Wiki/index.php/2009_Winter_Project_Week_Interactive_3D_Widgets_In_Slicer3  2009 Winter project week]
 
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Latest revision as of 13:55, 25 June 2009

Home < Plug-In 3D Viewer based on XIP

Key Investigators

  • Siemens Corporate Research: Lining Yang, Melanie Grebe
  • Steve Pieper

Our Objective

Our objective is to create a new 3D Slicer Plug-in based on NCI's eXtensible Imaging Platform (XIP), which can then be used as a starting point for future projects involving NA-MIC and caBIG.

Our Approach and Plan

We will implement a Host/Plug-in interface API that leverages the use of XIP modules (based on Open Inventor), and as a first example we will implement a simple 3D Viewer that can load and display DICOM data and visualize/navigate it using 3 synchronized MPR windows and a 3D volume rendering window, with the ability to render fused MR brain data.

Our Progress

We implemented a prototype that directly embedded the XIP in the existing Volume Rendering Module of the 3D Slicer where we take the output volume and other parameters from Slicer/VTK and use them to build and render an XIP scenegraph using XIP's volume rendering nodes.

Future work: During the week we talked to Ron, Steve, Jim and many others to explore other ways of integrating the XIP and 3D Slicer. Among them are: (1) Uses the socket connection / Slicer Daemon to establish a host/plug-in architecture where we can leverage the strength of both the XIP/slicer world. One example is that XIP serves as a Dicom explorer host and slicer as a post-processing plugin. (2) Uses XIP to help the users to further process / perform visual programming of for example the slicer command line module results.


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