Events:2011-06-15-Robarts-Slicer-Workshop

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Introduction

A Slicer tutorial will be hosted by the Biomedical Imaging Research Centre (BIRC) of the University of Western Ontario, London, Canada, on Wednesday, June 15, 2011. The primary objective of this event is to introduce users to the Slicer environment, as well as to illustrate the ability to integrate with ITK and Python modules. The concept of interfacing Slicer with imaging and tracking systems using Open IGTLink will also be discussed. The event will be held in Room MSB 148, Schulich School of Medicine and Dentistry, University of Western Ontario. This course will be followed at 5:30pm by a BIRC Seminar "Open Source Platforms for Collaborative Research - Examples from 3D Slicer" delivered by Dr Ron Kikinis. The seminar will take place in Auditorium A of University Hospital, on the University campus.

Faculty

  • Ron Kikinis, M.D., Surgical Planning Laboratory, Brigham and Women's Hospital, Harvard Medical School, Boston, MA
  • Sonia Pujol, Ph.D., Surgical Planning Laboratory, Brigham and Women's Hospital, Harvard Medical School, Boston, MA
  • Junichi Tokuda, Ph.D., Surgical Planning Laboratory, Brigham and Women's Hospital, Harvard Medical School, Boston, MA
  • Danielle Pace, M.ESc, Kitware Inc., Chapel Hill, NC

Local Organizer

  • Terry Peters, Ph.D., Biomedical Imaging Research Centre, University of Western Ontario, London, Canada

Agenda

  • 8:00-8:25 am Computer setup assistance by the instructors
  • 8:25-8:30 am Welcome and presentation of day activities (Ron Kikinis)
  • 8:30-9:45 am Hands-on session 1: Data Loading and 3D Visualization (Sonia Pujol)
  • 9:45-10:15 am Coffee Break
  • 10:15-11:15 am Hands-on session 2: Registration and resampling using Brainsfit: Rigid, Affine and Non-rigid (Danielle Pace)
  • 11:15-12:30 Hands-on session 3: White Matter Exploration for Surgical Planning (Sonia Pujol)
  • 12:30-13:30 Lunch Break
  • 13:30-14:45 Hands-on session 4: Python based modules to Slicer: The Hello Python Programming Tutorial (Sonia Pujol)
  • 14:45-15:30 Hands-on session 5: OpenIGTLink: Interfacing Slicer to devices (Junichi Tokuda)
  • 15:30-15:45 Coffee Break
  • 15.45-16:30 Demonstration of Slicer4 and the Skeletongenerator (Junichi Tokuda)
  • 16:15-16:30 Questions from the audience and concluding remarks
  • 17:30-19:00 BIRC Lecture: Ron Kikinis, MD: 3D Slicer "Open Source Platforms for Collaborative Research - Examples from 3D Slicer."
    Location: Auditorium A, University Hospital.

Logistics

  • Date: June 15, 2011
  • Workshop Location: Room MSB 148, Schulich School of Medicine and Dentistry, University of Western Ontario Click here for the campus map
  • BIRC Seminar location: Auditorium A, University Hospital, on the University campus
  • Registration: To sign-up for this event, please fill in the registration form and send it by e-mail to Katie Mastrogiacomo (kmast at bwh.harvard.edu) before June 7.

Room Configuration - Fisher Conference Room

24 port switch, wireless, two LCD projectors and screens, 6 power strips available for additional power.

Preparations

  • Hardware The workshop combines oral presentations and instructor-led hands-on sessions with the participants working on their own laptop computers.

All participants are required to come with their own laptop computer and install the software and datasets prior to the event. A minimum of 1 GB of RAM (4 GB is better) and a graphic accelerator with 64mb (512MB is better) of on-board graphic memory are required. Shared memory graphics boards have significantly poorer performance.

  • UPDATE: New version of Slicer to download

Software installation: Please install the Slicer3.6.3-2011-06-07 version appropriate to the laptop computer you'll be bringing to the workshop

  • Datasets and Tutorials:
Tutorial Data
Data Loading and 3D Visualization 3D Visualization dataset
‎White Matter Exploration for Surgical Planning White Matter Exploration dataset
Python based modules to Slicer: The Hello Python Tutorial HelloPython dataset
OpenIGTLinkIF Tutorial
BRAINSFIT Registration dataset

Slicer Community

Participants are invited to join the Slicer user and Slicer developer community prior to the workshop, for questions and feature requests related to the software.

For questions related to the workshop, please send an e-mail to Sonia Pujol (spujol at bwh.harvard.edu).

Slicer3 Training Survey

Click here to take the Slicer3 Training Survey

Registrants

  1. Kamyar Abhari, Biomedical Imaging Research Centre at the University of Western Ontario
  2. Mariam Afshin, UWO
  3. Del Archer, Parallax Innovations Inc.
  4. Ali Asadian, UWO
  5. Joseph Awad, Biomedical Imaging Research Centre at the University of Western Ontario
  6. Hamid Azimian, CSTAR, UWO
  7. Mahdi Azizian, CSTAR
  8. Srikanth Bhattad, UWO
  9. Adam Blais, Biomedical Imaging Research Centre at the University of Western Ontario
  10. Susan Buchanan, Biomedical Imaging Research Centre at the University of Western Ontario
  11. Daniel Cho , Biomedical Imaging Research Centre at the University of Western Ontario
  12. Derek Cool, Biomedical Imaging Research Centre at the University of Western Ontario
  13. Stephen Costella, Biomedical Imaging Research Centre at the University of Western Ontario
  14. Andrew Curtis, Biomedical Imaging Research Centre at the University of Western Ontario
  15. Tharindu De Silva, Biomedical Imaging Research Centre at the University of Western Ontario
  16. Ryan Divigalpitiya, UWO/Baines Center for Translational Cancer Research
  17. Maria Drangova, Biomedical Imaging Research Centre at the University of Western Ontario
  18. John Drozd, Biomedical Imaging Research Centre at the University of Western Ontario
  19. Abelardo Escoto, CSTAR
  20. Mehdi Esteghamatian, UWO
  21. Lori Gardi, UWO
  22. Eli Gibson, Biomedical Imaging Research Centre at the University of Western Ontario
  23. Jeremy Gill, Parallax Innovations Inc.
  24. Maged Goubran, Biomedical Imaging Research Centre at the University of Western Ontario
  25. Reza Heydarian, Biomedical Imaging Research Centre at the University of Western Ontario
  26. Samaneh Kazemifar, Biomedical Imaging Research Centre at the University of Western Ontario
  27. Jeff Kempe, LHSC
  28. Iman Khalaji, UWO
  29. Ali Khan, Biomedical Imaging Research Centre at the University of Western Ontario
  30. Miranda Kirby, Biomedical Imaging Research Centre at the University of Western Ontario
  31. Pencilla Lang, UWO
  32. Fraser Le Ber, CSTAR
  33. Feng Li, Biomedical Imaging Research Centre at the University of Western Ontario
  34. Hao Li, CSTAR
  35. Harry Marshall, LRHI
  36. Lindsay Mathew, Biomedical Imaging Research Centre at the University of Western Ontario
  37. Brandon Miles, UWO
  38. John Moore, Biomedical Imaging Research Centre at the University of Western Ontario
  39. Michael Naish, UWO
  40. Nima Najmaei, UWO
  41. Hamid Neshat, Biomedical Imaging Research Centre at the University of Western Ontario
  42. Haroon Oqab, UWO
  43. Amir Owrangi, Biomedical Imaging Research Centre at the University of Western Ontario
  44. Grace Parraga, UWO
  45. Rajni Patel, UWO
  46. Ivailo Petrov, Biomedical Imaging Research Centre at the University of Western Ontario
  47. Terry Peters, Biomedical Imaging Research Centre at the University of Western Ontario
  48. Bon Ryu, Biomedical Imaging Research Centre at the University of Western Ontario
  49. Brendan Santyr, Biomedical Imaging Research Centre at the University of Western Ontario
  50. Maysam Shahedi, Biomedical Imaging Research Centre at the University of Western Ontario
  51. Arefin Shamsil, UWO
  52. Harish Sharma, UWO
  53. Igor Solovey, Biomedical Imaging Research Centre at the University of Western Ontario
  54. Feng Su, UWO
  55. Sarah Svenningsen, Biomedical Imaging Research Centre at the University of Western Ontario
  56. Ali Tavallaei, Biomedical Imaging Research Centre at the University of Western Ontario
  57. Trevor Thang, UWO
  58. Jian Wang, UWO
  59. Aaron Ward, UWO
  60. Andrew Wheatley, Biomedical Imaging Research Centre at the University of Western Ontario
  61. Ran Xu, CSTAR
  62. Kevin Yang, Biomedical Imaging Research Centre at the University of Western Ontario
  63. Timothy Yeung, UWO




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