Iowa-March-20-2012-Slicer-Workshop

Training Faculty

• Ron Kikinis, M.D., Surgical Planning Laboratory, Harvard Medical School, Boston, MA
• Sonia Pujol, Ph.D., Surgical Planning Laboratory, Harvard Medical School, Boston, MA
• Demian Wasserman, Ph.D., Brigham and Women's Hospital, Boston, MA
• Andrey Fedorov, Ph.D., Surgical Planning Laboratory, Harvard Medical School, Boston, MA
• Hans Johnson, Ph.D., University of Iowa, Iowa City, IA
• Vince Magnotta, Ph.D., University of Iowa, Iowa City, IA
• David Welch, University of Iowa, Iowa City, IA
• Eric Axelson, University of Iowa, Iowa City, IA
• Joy Matsui, University of Iowa, Iowa City, IA

Logistics

• Date: Tuesday March 20th and Wednesday March 21st, 2012
• Location: Information Commons West (2nd floor), Hardin Library, University of Iowa, Iowa City
• 2010 Workshop Flyer
• Slicer version: Slicer 4

The software and workshop datasets will be posted a few weeks before the event.

• Additional information

Tentative Agenda

Time	Tuesday, March 20, 2012
9:00-9:10 AM	Welcome (Ron Kikinis)
9:10-9:55 AM	Slicer Basics (Sonia Pujol)
9:55-10:45 AM	DTI (Demian Wasserman)
10:45-11:00 AM	Coffee Break
11:00-12:15 PM	Neurosurgical Workflow (Sonia Pujol)
12:15-1:30 PM	Lunch
1:30-3:00 PM	XNAT, Registration (Hans Johnson)
3:00-3:30 PM	Coffee Break
3:30-5:00 PM	Quantitative Imaging (Andrey Fedorov)
Time	Wednesday, March 21, 2012
09:00-9:45 AM	Developing for Slicer: An Introduction to SEM (Andriy Fedorov/Sonia Pujol)
9:45-10:15 AM	SimpleITK with Slicer (Hans Johnson)
10:15-10:30 AM	Coffee Break
10:30 AM-11:30 PM	Slicer Customization with Scripting (Demian Wasserman/Sonia Pujol)
11:30-12:00 PM	Concluding Remarks and Feedback
1:00-5:00 PM	DWI Discussion (Demian Wasserman) (By invitation only)	QIN Discussion (Andriy Fedorov) (By invitation only)

BWH/Iowa QIN/AIM meeting (March 22)

Agenda to be finalized by Milan Sonka, based on email communication of BWH and Iowa teams

Items of interest (Reinhard Beichel):

• AIM - general overview + discussion (~1 h)
• Discussion of BWH QIN use-case (~30 min)
• Discussion of Iowa QIN use-case - H&N (~1-2 h)
• Discussion of Iowa bioinformatics infrastructure setup: XNAT, databases, application to Iowa use cases (~30 min)
• AIM/Slicer project - overview + discussion: 2D/3D/4D objects, AIM toolkit concept vs. specific use-case implementation, ... (~2h)
• Slicer 4 - module development, GUI design, future directions, development support, etc. (~1-2h; I'm not sure if this will be covered by other presentations and who would be the right person for this)

Andrey's sugested items

1) Slicer 4.0 status and future (~30 min -- beyond what will be
covered by the general workshop program, Fedorov)
 * what is currently available
 * what is being actively developed and should be available soon
 * it would help if Iowa collect specific set of questions according
to your needs
2) AIM 3.0 overview (~1 hr, Fedorov + Iowa AIM experts)
 * concepts and motivation for structured reporting
 * AIM
 * alternatives (e.g., DICOM SR)
 * available support: user-level tools, toolkits
 * limitations
3) Slicer/AIM integration plans and status (~30 min, Fedorov)
 * connection with the existing Slicer functionality
 * supported annotation types
 * user-level workflow
 * limitations

4) BWH QIN use case (~30-45 min, Fedorov)
 * research questions of our interest
 * kinds of data being analyzed
 * processing workflows
 * use of Slicer
 * applicability of AIM
5) Iowa QIN use case (~1 hr, Iowa)
 * I would like to learn specifically about Iowa bioinformatics
infrastructure (use of XNAT, other components)

6) Brainstorming/discussion of AIM applicability, alternatives (~1hr)

6) Focused discussion for developers, as Reinhard suggested (~1-2 hr,
need to coordinate with the general program events to avoid
duplication)

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