Difference between revisions of "2015 Winter Project Week:OpenAtlas"

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== Background ==
 
== Background ==
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In December 2005, DARPA sponsored a ''Virtual Face'' workshop. The purpose of the workshop was to discuss approached to create a DARPA program that would address facial trauma in soldiers returning from Iraq and Afghanistan. Rick Satava, DARPA Program Officer, brought together clinicians, bio-medical researchers and computer scientists to brainstorm on the requirements of such a project.
 +
 +
At that time, GE Research was involved in another DARPA Program called "Virtual Soldier". GE's role was to support anatomy modelling and visualization for the project. Brigham and Women's SPL was a GE subcontractor. GE and BWH used the Visible Human segmented Thorax data as a base for modeling the chest of military combatants. A nuber of software tools were created to process this data.
 +
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After the Virtual Face Meeting, Bill Lorensen and Tim Kelliher, both from GE Research, brainstormed about creating a face atlas for the project. The meeting took place at [http://www.rockbottom.com/locations/arlington the Rockbottom Brewery in Arlington, VA]. No facial atlas existed, but they came up with the notion of using the world community to create and maintain such an atlas. They would use an "Extreme Testing" approach that GE Research pioneered for VTK and ITK. The approach would adapt the nightly build/test dashboard techniques that GE had developed.
 +
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Unfortunately, the program was never funded.
 +
 +
In January 2007, Terry Yoo(the father of ITK) at NLM held a workshop on future directions for NLM software initiatives. Lorensen presented a talk called "Community Driven Annotation of Medical Atlases." This talk synthesized many of the Kelliher/Lorensen notions.
 +
 +
Unfortunately, the program was never funded.
 +
 +
In 2007, Lorensen retired from GE Research and became an unpaid intern in BillsBasement@noware. He revived,modified and extended many of the original Virtual Soldier atlas processing tools. The Open Atlas project was formed.

Revision as of 18:58, 24 December 2014

Home < 2015 Winter Project Week:OpenAtlas

  • Adjacency display for corpus callosum

  • Difference display for pons

Key Investigators

  • Bill Lorensen (Noware)

Project Description

Objective

  • Provide tools and techniques to support community-driven anatomy atlas editing and curating.

Approach, Plan

Adapt extreme testing techniques used for software development to manage changes to anatomy atlases.

  • Define procedures and policies to support atlas development
  • Maintain a github repository to hold
    • Image atlases
    • Software tools to create models and check atlases for consistency
    • Cube and STL models for anatomy structures
    • Statistics for anatomy structures
    • Displays of changes in strutures
    • Displays of structure adjacencies
  • Create a CDash dashboard to track changes in the atlases

Progress

Before Project Week

During Project Week

  • Establish an external data mechanism to keep the large binary files out of the repository. This will use the CMake ExternalData techniques developed for VTK and ITK.
  • Create a Superbuild option for VTK and ITK that will simplify configuring the required VTK and ITK toolkits.
  • Get feedback from potential customers (Ron, Mike Halle, Marianna)

Background

In December 2005, DARPA sponsored a Virtual Face workshop. The purpose of the workshop was to discuss approached to create a DARPA program that would address facial trauma in soldiers returning from Iraq and Afghanistan. Rick Satava, DARPA Program Officer, brought together clinicians, bio-medical researchers and computer scientists to brainstorm on the requirements of such a project.

At that time, GE Research was involved in another DARPA Program called "Virtual Soldier". GE's role was to support anatomy modelling and visualization for the project. Brigham and Women's SPL was a GE subcontractor. GE and BWH used the Visible Human segmented Thorax data as a base for modeling the chest of military combatants. A nuber of software tools were created to process this data.

After the Virtual Face Meeting, Bill Lorensen and Tim Kelliher, both from GE Research, brainstormed about creating a face atlas for the project. The meeting took place at the Rockbottom Brewery in Arlington, VA. No facial atlas existed, but they came up with the notion of using the world community to create and maintain such an atlas. They would use an "Extreme Testing" approach that GE Research pioneered for VTK and ITK. The approach would adapt the nightly build/test dashboard techniques that GE had developed.

Unfortunately, the program was never funded.

In January 2007, Terry Yoo(the father of ITK) at NLM held a workshop on future directions for NLM software initiatives. Lorensen presented a talk called "Community Driven Annotation of Medical Atlases." This talk synthesized many of the Kelliher/Lorensen notions.

Unfortunately, the program was never funded.

In 2007, Lorensen retired from GE Research and became an unpaid intern in BillsBasement@noware. He revived,modified and extended many of the original Virtual Soldier atlas processing tools. The Open Atlas project was formed.

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