Difference between revisions of "2013 Summer Project Week:MRML Infrastructure Airway Inspector"

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Image:PW-MIT2013.png|[[2013_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:EmphysemaGUI.png|Emphysema Analysis Tool
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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:AIScreenshot.png|Airway Analysis Tool
 
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==Instructions for Use of this Template==
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==Key Investigators==
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#Please create a new wiki page with an appropriate title for your project using the convention 2013_Summer_Project_Week:<Project Name>
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* BWH: Demian Wassermann, Raul San Jose, Rola Harmouche (BWH)
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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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<h3>Background</h3>
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Airway Inspector (www.airwayinspector.org) is a tool for CT-based image quantitative analysis of the lung to allow the exploration of  airway morphology and desitometric characteristics [1]. In order to become a part of 3D Slicer 4, the Airway inspector needs to have a consistent MRML representation of data and visualization
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#Send an email to tkapur at bwh.harvard.edu if you are stuck
 
  
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==Key Investigators==
 
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* UNC: Isabelle Corouge, Casey Goodlett, Guido Gerig
 
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* Utah: Tom Fletcher, Ross Whitaker
 
  
 
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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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To develop a MRML Infrastructure for the airway inspector
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<h3>Approach, Plan</h3>
 
<h3>Approach, Plan</h3>
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We will base the developement in the current infrastructure for tractography in 3D slicer. This is well modularized and encompasses data representation, I/O and GUI
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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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<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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A Loadable module with the MRML nodes for storage, data representation and visualization has been created. The next steps are to create the Logic and GUI components.
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==Delivery Mechanism==
 
==Delivery Mechanism==
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This work will be delivered to the NA-MIC Kit as a
  
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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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#ITK Module
 
 
#Slicer Module
 
#Slicer Module
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##Built-in
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##Extension — loadable modules
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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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* San Jose Estepar R, Washko GG, Silverman EK, Reilly JJ, Kikinis R, Westin CF. Airway inspector: An open source application for lung morphometry. In First International Workshop on Pulmonary Image Processing. New York City, USA, 2008;293-302. Available on-line: www.lulu.com/content/3507981.
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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 .
 

Latest revision as of 12:31, 21 June 2013

Home < 2013 Summer Project Week:MRML Infrastructure Airway Inspector

Key Investigators

  • BWH: Demian Wassermann, Raul San Jose, Rola Harmouche (BWH)

Background

Airway Inspector (www.airwayinspector.org) is a tool for CT-based image quantitative analysis of the lung to allow the exploration of airway morphology and desitometric characteristics [1]. In order to become a part of 3D Slicer 4, the Airway inspector needs to have a consistent MRML representation of data and visualization


Objective

To develop a MRML Infrastructure for the airway inspector

Approach, Plan

We will base the developement in the current infrastructure for tractography in 3D slicer. This is well modularized and encompasses data representation, I/O and GUI

Progress

A Loadable module with the MRML nodes for storage, data representation and visualization has been created. The next steps are to create the Logic and GUI components.

Delivery Mechanism

This work will be delivered to the NA-MIC Kit as a

  1. Slicer Module
    1. Extension — loadable modules

References

  • San Jose Estepar R, Washko GG, Silverman EK, Reilly JJ, Kikinis R, Westin CF. Airway inspector: An open source application for lung morphometry. In First International Workshop on Pulmonary Image Processing. New York City, USA, 2008;293-302. Available on-line: www.lulu.com/content/3507981.
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