NA-MIC/Projects/Collaboration/Lung Atlas

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Atlas Project Splash Image

Key Investigators

  • Gary Christensen, Iowa
  • Nathan Fritze, Iowa
  • Nathan Burnette, Iowa
  • Bill Hoffman
  • Sebastien Barre, Kitware
  • Katie Hayes, BWH
  • Jim Miller
  • Luis Ibanez, Kitware (image registration regression testing, Cpack, and ITK)
  • Will Schroeder, Kitware (license issues)

Project Status


Develop a software tool for visualizing and querying an electronic lung airway atlas. We are developing atlases of the human lung R01 HL64368, the rat lung R01HL073598, and the mouse lung R01 HL080285. We want to make a common software tool that can be customized for specific atlases. The image data and semantic information will be stored in a database and will be indexed through a graphical user interface.

Approach, Plan

Our plan for the project week is to

  • Reduce bottlenecks for the atlas application
  • Setup CMake, CPack, and Dashboard for project.
  • Select a license for software
  • Look at atlases developed in Slicer3.
  • Compare and contrast the performance of Kwwidgets and wxWidgets
  • Discuss ideas for a data manager object that is used to read, organize, and manage memory issues for the atlas.
  • Learn the best ways to visualize images, surface models, segmentations and symbolic information referenced by coordinate systems using the NA-MIC software
  • Refine user interface for displaying atlas statistics, images, labels, coloring.
  • Discuss registration methods for matching airway trees.


We have...

  • Adjusted our image data containers to more efficiently store our data set. ( short int's over int's )
  • Begun revision of our color mapping function for the 3D model to prefer the built-in classes over a more exhaustive approach.
  • Setup Dashboard for the project and can successfully submit test results.
  • Adjusted Pipeline to release unneeded data in earlier portions of the pipeline.
  • Dabbled in CPack.
  • Successfully created many empty packages.
  • Decided the install target via CMake needs work ( ...or to work ).
  • Installed brain and abdominal atlases developed in Slicer3.