Slicer3:Slicer3 Workshop UNC Chapel Hill 2008

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Syllabus

This workshop provides an introduction to the Slicer3 software platform, part of the National Alliance for Medical Imaging Computing open-source toolkit. Participants will learn how to use Slicer3 for image analysis and 3D visualization, and how to integrate external programs with the open-source software.

Course Faculty

  • Sonia Pujol, Ph.D., Surgical Planning Laboratory, Harvard Medical School
  • Randy Gollub, M.D., Ph.D., Athinoula A. Martinos Center for Biomedical Imaging, Harvard Medical School
  • Steve Piper, Ph.D., Isomics
  • Kathryn Hayes, M.S.E., Surgical Planning Laboratory, Brigham and Women's Hospital

Logistics

  • Date: April 14, 2008
  • Location: Room 2204 Medical Biomolecular Research Building at 111 Mason Farm Road, Chapel Hill NC 27599
  • Participants are required to come with their own computer (PC, Linux or MacOS) with a built-in version of Slicer3.
  • Attendance is limited to 40 participants. To sign-up for this event, please send an e-mail with the subject line 'NA-MIC Workshop Registration - April 14' to Sonia Pujol, Ph.D. (spujol at bwh.harvard.edu) with your contact information (Name, Title, Affiliation and Address) and the characteristics of your laptop computer (OS, RAM, Processor).

Agenda 9:00 AM - 5:00 PM

  • 9:00 am - 9:10 am Preliminary session: Software and data installation trouble shooting
  • 9:10 am - 9:20 am Welcome and introduction to the Workshop (Randy Gollub)
  • 9:20 am - 10:00 am Slicer3 Overview and Applications (Steve Pieper)
  • 10:00 am - 10:45 am Hands-on Session 1: Data Loading and Visualization in Slicer3 (Sonia Pujol)
  • 10:45 am - 11:00 am Coffee-break
  • 11:00 am - 11:45 pm Hands-on Session 2: Data Saving in Slicer3 (Sonia Pujol)
  • 11:45 am - 12:00 pm Conclusion and Guided-tour of the Slicer3 Bug Tracker (Steve Pieper)
  • 12:00 pm - 1:45 pm Lunch on Your Own
  • 1:45 pm - 2:00 pm Slicer3 Execution Model Introduction (Steve Pieper)
  • 2:00 pm - 3:15 pm Hands-on Session 3: Slicer3 Plug-ins (Sonia Pujol)
  • 3:15 pm - 3:30 pm Coffee-break
  • 3:30 pm - 4:45 pm Hands-on Session 3: Slicer3 Plug-ins (continued, Sonia Pujol)
  • 4:45 pm - 5:00 pm Feedback from participants and Conclusion (Randy Gollub)

Preparation for the Workshop

Please complete the following items prior to the course. Support will be provided as requested.

  • Software Installation: Please build Slicer3 on the computer you will be bringing to the workshop

The instructions for installing the pre-requisite development packages and for building Slicer3 are posted on the NAMIC website: http://www.na-mic.org/Wiki/index.php/Slicer3:Build_Instructions.

Note: The process of building Slicer3 takes 2 hours and requires 2 GB of RAM.


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