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

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==Key Investigators==
 
==Key Investigators==
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* Rola Harmouche,Demian Wassermann, Raul San Jose (BWH)
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* BWH: Raul San Jose, Demian Wassermann, Rola Harmouche (BWH)
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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]. Airway Inspector is based on Slicer2.
  
 
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<div style="margin: 20px;">
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<h3>Objective</h3>
 
<h3>Objective</h3>
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Port the capabilities of Airway Inspector to Slicer4.
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We have developed a library of tools (Chest Imaging Platform) for the processing and the analysis of chest images. The main objective is to make the tools available to the public by incorporating them into Slicer as command line extension modules and through a nipype work flow for their deployment in high performance computing environments.
 
  
 
</div>
 
</div>
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<h3>Approach, Plan</h3>
 
<h3>Approach, Plan</h3>
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This goal will be achieved by creating  extension module with two components:
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* Emphysema Analysis Sub-Module
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** Port Chest structure segmentation using VTK
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** Creation of loadable module
  
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The library contains a set of tools for image processing, segmentation and airway and vessel generation  using particles and inspection. Some of these tools are described in the works by Ross et al. and Kindlmann et. al. Our plan for the project week is to port most of these tools to the CLI infrastructure and to define nipype interfaces.
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* Airway Analysis Sub-Module
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** Port airway measurement VTK classes
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** Creation of a loadable module
 
</div>
 
</div>
  
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<h3>Progress</h3>
 
<h3>Progress</h3>
  
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The tools have been developed using C++ and ITK and have been validated and used in the works described previously.  
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The main libraries for lung and airway wall segmentation tools have been developed using C++ and VTK and have been validated and used in multiple clinical works.
  
  
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#Slicer Module
 
#Slicer Module
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##Extension -- commandline
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##Extension — loadable modules
  
 
==References==
 
==References==
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* James C. Ross, R. San Jose Estepar, G. Kindlmann, Alejandro Diaz, C.-F. Westin, Edwin K. Silverman, George R. Washko, [Automatic Lung Lobe Segmentation Using Particles, Thin Plate Splines, and Maximum a Posteriori Estimation] Medical Image Computing and Computer-Assisted Intervention -- MICCAI 2010 Volume 6363, Pages 163-171, 2010
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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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* Gordon Kindlmann, Raúl San José Estépar, Stephen M. Smith, Carl-Fredrik Westin. Sampling and Visualizing Creases with Scale-Space Particles. IEEE Transactions on Visualization and Computer Graphics. 2009; 15(6):1415-1424.
 
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* San José Estépar, R. et al., 2012. Computational Vascular Morphometry for the Assessment of Pulmonary Vascular Disease based on Scale-Space Particles. In Proceedings of the 9th IEEE International Symposium on Biomedical Imaging (ISBI) 2012. Barcelona, pp. 1479–1482.
 

Revision as of 16:30, 16 June 2013

Home < 2013 Summer Project Week:Airway Inspector Porting

Key Investigators

  • BWH: Raul San Jose, Demian Wassermann, 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]. Airway Inspector is based on Slicer2.

Objective

Port the capabilities of Airway Inspector to Slicer4.

Approach, Plan

This goal will be achieved by creating extension module with two components:

  • Emphysema Analysis Sub-Module
    • Port Chest structure segmentation using VTK
    • Creation of loadable module
  • Airway Analysis Sub-Module
    • Port airway measurement VTK classes
    • Creation of a loadable module

Progress

The main libraries for lung and airway wall segmentation tools have been developed using C++ and VTK and have been validated and used in multiple clinical works.


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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