Difference between revisions of "2011 Winter Project Week:DicomRtExport"

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<gallery>
 
Image:PW-MIT2010.png|[[2010_Summer_Project_Week#Projects|Projects List]]
 
Image:PW-MIT2010.png|[[2010_Summer_Project_Week#Projects|Projects List]]
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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:plastimatch_dicomrt_dose.png|DICOM RT Dose
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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:plastimatch_dicomrt_ss.png|DICOM RT Structure Set
 
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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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* MGH: Greg Sharp
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* Utah: Tom Fletcher, Ross Whitaker
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* Isomics: Steve Pieper
  
 
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<h3>Objective</h3>
 
<h3>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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Slicer currently has a DICOM-RT import plugin, but not a DICOM-RT export plugin. This project will attempt to remedy this deficiency by creating a plugin for DICOM-RT export.
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<h3>Approach, Plan</h3>
 
<h3>Approach, 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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The approach will be to create a command line plugin which wraps the plastimatch tool.  Images will be exported as CT, dose, or structure sets. For structure sets, we will assume a bit-sliced image format rather than labelmap format.  
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Our plan for the project week is to first try out <bar>,...
 
  
 
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<h3>Progress</h3>
 
<h3>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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* plastimatch-slicer-dicomrt-export (and import) successfully built as slicer extensions
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* windows version works for import and export
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* linux version works for import, fails on export (being investigated)
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* DICOMRT datastructures will be populated as part of slicer4 dicom interface project.
 
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==Delivery Mechanism==
 
==Delivery Mechanism==
  
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This work will be delivered to the NA-MIC Kit as a (please select the appropriate options by noting YES against them below)
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This work will be delivered to the NA-MIC Kit as a command line module.
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#ITK Module
 
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#Slicer Module
 
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##Built-in
 
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##Extension -- commandline
 
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##Extension -- loadable
 
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#Other (Please specify)
 
  
 
==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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* [https://www.slicer.org/wiki/Modules:PlastimatchDICOMRT DICOM-RT import plugin for Slicer]
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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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Latest revision as of 17:44, 10 July 2017

Home < 2011 Winter Project Week:DicomRtExport

Key Investigators

  • MGH: Greg Sharp
  • Isomics: Steve Pieper

Objective

Slicer currently has a DICOM-RT import plugin, but not a DICOM-RT export plugin. This project will attempt to remedy this deficiency by creating a plugin for DICOM-RT export.


Approach, Plan

The approach will be to create a command line plugin which wraps the plastimatch tool. Images will be exported as CT, dose, or structure sets. For structure sets, we will assume a bit-sliced image format rather than labelmap format.

Progress

  • plastimatch-slicer-dicomrt-export (and import) successfully built as slicer extensions
  • windows version works for import and export
  • linux version works for import, fails on export (being investigated)
  • DICOMRT datastructures will be populated as part of slicer4 dicom interface project.

Delivery Mechanism

This work will be delivered to the NA-MIC Kit as a command line module.

References

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