Difference between revisions of "2008 Engineering review at Utah"
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The date is now set at: March 24-26, 2008. | The date is now set at: March 24-26, 2008. | ||
Begin: Morning of Monday, March 24. End: Noon on Wednesday, March 26. | Begin: Morning of Monday, March 24. End: Noon on Wednesday, March 26. | ||
| + | |||
| + | '''[[2008_Engineering_review_at_Utah:Summary | **SUMMARY AND ACTION ITEMS**]]''' | ||
| + | |||
| + | '''[[2008_Engineering_review_at_Utah:FollowUp | **ACTION UPDATE**]]''' | ||
Suggested Hotel: [http://www.monaco-saltlakecity.com/ Hotel Monaco]. | Suggested Hotel: [http://www.monaco-saltlakecity.com/ Hotel Monaco]. | ||
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'''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.''' | '''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.''' | ||
| − | ''' | + | '''Schedule''' |
* Monday 24 | * Monday 24 | ||
| − | ** | + | *** 9am: Goals, aims and organization of the meeting (Ross / Guido / Will / Jim / Steve) |
| − | + | *** Introductions to kick off discussions: | |
*** Slicer3 Plugins Presentation [[Media:Slicer3Plugins.ppt|[ppt]]] | *** Slicer3 Plugins Presentation [[Media:Slicer3Plugins.ppt|[ppt]]] | ||
| − | + | *** Segmentation (Marcel) [[Media:NA-MIC-Core1%2B3_UtahPrastawa_Segmentation_Mar24_2008.ppt| [ppt] ]] | |
| − | |||
| − | *** 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?'' [http://www.sci.utah.edu/cgi-bin/ALLseminars.pl?display=2008032400] | ** 12pm to 1.30pm: Lunch / Possibility to attend SCI distinguished lecture by Andy van Dam titled ''When is the Pen Mightier Than the Keyboard?'' [http://www.sci.utah.edu/cgi-bin/ALLseminars.pl?display=2008032400] | ||
| − | ** 2pm: | + | ** 2pm: DTI analysis pipeline (Casey / Tom / Guido) [[Media:Namic-DTI-core2-slc-review.pdf| [pdf] ]] |
| + | *** Shape analysis (Josh / Tom / Ross ) | ||
| + | *** Summary of open issues to be further discussed | ||
** Dinner (tbd) | ** Dinner (tbd) | ||
* Tuesday 25 | * Tuesday 25 | ||
** 9am Continue discussion of engineering issues | ** 9am Continue discussion of engineering issues | ||
| − | ** Noon to 1.30pm: | + | ** Noon to 1.30pm: SCI seminar: "The NAMIC Kit", Presenters: Jim Miller, GE Research, Steve Pieper, Isomics, Will Schroeder, Kitware |
** 1.30pm Continue discussion of engineering issues | ** 1.30pm Continue discussion of engineering issues | ||
| − | ** Dinner ( | + | ** 3 - 4pm: Breakout to work on a few major issues identified in previous discussions. |
| + | *** Summary of open issues to be further discussed | ||
| + | ** 7pm Dinner at Gerig's (525 L Street, Salt Lake City) http://maps.google.com/maps?f=q&hl=en&geocode=&q=525+L+Street,+Salt+Lake+City&sll=40.751431,-73.976041&sspn=0.006665,0.013561&ie=UTF8&ll=40.78873,-111.858501&spn=0.053287,0.10849&z=13&iwloc=addr | ||
* Wednesday 26 | * Wednesday 26 | ||
| − | ** Discussion action items: | + | ** 9am Discussion of action items: |
*** Strategic plan for software integration (who decides on what, coherence, interoperability) | *** Strategic plan for software integration (who decides on what, coherence, interoperability) | ||
*** Which modules will be integrated by whom (paired Core-1 / Core-2 effort) | *** Which modules will be integrated by whom (paired Core-1 / Core-2 effort) | ||
*** Detailed plan with deliverables and timeline | *** Detailed plan with deliverables and timeline | ||
*** Noon: adjourn | *** Noon: adjourn | ||
| + | |||
| + | '''[[2008_Engineering_review_at_Utah:Summary | **SUMMARY AND ACTION ITEMS**]]''' | ||
'''Project-specific details to be discussed''' | '''Project-specific details to be discussed''' | ||
| Line 82: | Line 90: | ||
** Command-line vs built in modules | ** Command-line vs built in modules | ||
*** Policies for supporting one versus the other | *** Policies for supporting one versus the other | ||
| + | |||
| + | * GSlicer3. Slicer3 with embedded grid computing capabilities (Powered by GWE) | ||
| + | ** GWE Core: [[Media:GWE-Core.ppt|Overview Presentation]] / [[Media:GWECore-Demo.mov|Video Demo]] / [http://gridwizardenterprise.org/ Project Site] | ||
| + | ** GSlicer3: [[Media:GWE-GSlicer3.ppt|Overview Presentation]] / [[Media:GSlicer3-Demo.mov|Video Demo]] / [http://gridwizardenterprise.org/integration/slicer.html Project Site] | ||
| + | |||
| + | '''[[2008_Engineering_review_at_Utah:Summary | ***SUMMARY AND ACTION ITEMS***]]''' | ||
* '''Attendees''' | * '''Attendees''' | ||
Latest revision as of 18:27, 3 April 2008
Home < 2008 Engineering review at UtahThe 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)
Place: SCI Institute, 72 South Campus Drive, Warnock Engineering Building WEB (Directions), 3rd floor Jones conference room 3840 (elevator to 3rd floor, room is to the left).
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.
Schedule
- Monday 24
- Tuesday 25
- 9am Continue discussion of engineering issues
- Noon to 1.30pm: SCI seminar: "The NAMIC Kit", Presenters: Jim Miller, GE Research, Steve Pieper, Isomics, Will Schroeder, Kitware
- 1.30pm Continue discussion of engineering issues
- 3 - 4pm: Breakout to work on a few major issues identified in previous discussions.
- Summary of open issues to be further discussed
- 7pm Dinner at Gerig's (525 L Street, Salt Lake City) http://maps.google.com/maps?f=q&hl=en&geocode=&q=525+L+Street,+Salt+Lake+City&sll=40.751431,-73.976041&sspn=0.006665,0.013561&ie=UTF8&ll=40.78873,-111.858501&spn=0.053287,0.10849&z=13&iwloc=addr
- Wednesday 26
- 9am Discussion of 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
- 9am Discussion of action items:
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
- Infrastructure for DWI/DTI data types
- 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
- More general concept of providing a set of procedures
- Properties: linear/nonlinear, low vs. highdimensional, invertability, diffeomorphic
- 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
- How to provide coherent user interfaces for specific tasks
- GSlicer3. Slicer3 with embedded grid computing capabilities (Powered by GWE)
- GWE Core: Overview Presentation / Video Demo / Project Site
- GSlicer3: Overview Presentation / Video Demo / Project Site
***SUMMARY AND ACTION ITEMS***
- Attendees
- Ross Whitaker
- Tom Fletcher
- Ran Tao
- Josh Cates
- Guido Gerig
- Marcel Prastawa
- Sylvain Gouttard
- Casey Goodlett
- C-F Westin
- Will Schroeder
- Steve Pieper
- Jim Miller
- Xiaodong Tao
- Marco Ruiz
