Difference between revisions of "2008 Engineering review at Utah"

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*** Segmentation, preprocessing, parameterization, visualization
 
*** Segmentation, preprocessing, parameterization, visualization
 
** How to accommodate new modules/techniques
 
** How to accommodate new modules/techniques
 +
 +
* ''Segmentation pipeline''
 +
** Typical sequence of processing steps / procedures
 +
** Prototyping optimal sequence/parameters via GUI
 +
** Batch job for large number of image data
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** Segmentation of healthy/pathology
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** What do different procedures have in common (using shared modules)
  
 
* [[DBP2:UNC:Cortical_Thickness_Roadmap]]
 
* [[DBP2:UNC:Cortical_Thickness_Roadmap]]

Revision as of 18:25, 21 March 2008

Home < 2008 Engineering review at Utah

The date is now set at: March 24-26, 2008. Begin: Morning of Monday, March 24. End: Noon on Wednesday, March 26.

Suggested Hotel: Hotel Monaco.

Engineering Attendees: Jim Miller, Xiaodong Tao, Steve Pieper, Will Schroeder, Marco Ruiz (Full list of attendees in the end of page)

  • Slicer3 Plugins Presentation [ppt]

Proposed discussion items:

Discussion of engineering issues related to the 3 major Utah projects DTI Analysis, Shape Analysis, Segmentation including Pathology. Main aim: Discuss and coordinate Slicer-3 integration efforts of the Utah R&D efforts, in particular w.r.t. pipelines or sequences of processing steps that are necessary in most medical image analysis procedures.

Draft Schedule

  • Monday 24
    • Introduction to kick off discussions:
      • Goals and aims of meeting (Ross / Guido / Will / Jim / Steve)
      • Slicer3 Plugins Presentation [ppt]
      • DTI analysis pipeline (Casey / Tom / Guido)
      • Shape analysis (Josh / Tom / Ross )
      • Segmentation (Marcel)
    • 12pm to 1.30pm: Lunch / Possibility to attend SCI distinguished lecture by Andy van Dam titled When is the Pen Mightier Than the Keyboard? [1]
    • 2pm: Continue discussions
    • Dinner (tbd)
  • Tuesday 25
    • 9am Continue discussion of engineering issues
    • Noon to 1.30pm: Lunch / ev. SCI presentation by Will Schroeder (tbd)
    • 1.30pm Continue discussion of engineering issues
    • Dinner (tbd)
  • Wednesday 26
    • Discussion action items:
      • Strategic plan for software integration (who decides on what, coherence, interoperability)
      • Which modules will be integrated by whom (paired Core-1 / Core-2 effort)
      • Detailed plan with deliverables and timeline
      • Noon: adjourn

Project-specific details to be discussed

  • DTI processing modules/pipeline
    • Infrastructure for DWI/DTI data types
      • How to handle coordinate frames
    • Preprocessing pipeline for DWI->DTI->analysis
      • Filtering
      • Registration
      • Estimation
      • White mater mask
      • User interfaces/interaction
    • Analysis of DTI data
      • Tractography
      • Atlases
      • Derived quantities
      • Hypothesis testing
  • Shape analysis pipeline
    • How to organize data
    • How to break pipeline in to steps
      • Segmentation, preprocessing, parameterization, visualization
    • How to accommodate new modules/techniques
  • Segmentation pipeline
    • Typical sequence of processing steps / procedures
    • Prototyping optimal sequence/parameters via GUI
    • Batch job for large number of image data
    • Segmentation of healthy/pathology
    • What do different procedures have in common (using shared modules)
  • The general problem of registration and atlases
    • Status of spline-based methods
    • Intertability
    • How to incorporate registration/atlases/atlas building in to slicer3
  • General architecture issues
    • How to provide coherent user interfaces for specific tasks
      • Pipelines for specific data or analyses
      • E.g. see Siemens workstation software with modules/pages
    • Command-line vs built in modules
      • Policies for supporting one versus the other
  • Attendees
    • Ross Whitaker
    • Tom Fletcher
    • Josh Cates
    • Guido Gerig
    • Marcel Prastawa
    • Sylvain Gouttard
    • Casey Goodlett
    • C-F Westin
    • Will Schroeder
    • Steve Pieper
    • Jim Miller
    • Xiaodong Tao
    • Marco Ruiz