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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TBD
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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 .
 

Revision as of 12:11, 17 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

TBD


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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