2017 Winter Project Week

Welcome to the web page for the 24th Project Week!

The 24th NA-MIC Project Week open source hackathon is being held during the week of January 9-13, 2017 at MIT. Please go through this page for information, and if you have questions, please contact Tina Kapur, PhD.

Logistics

• Dates: January 9-13, 2017.
• Location: MIT CSAIL, Cambridge, MA. (Rooms: Kiva, R&D)
• REGISTRATION: Register here. Registration Fee: $330.
• Hotel: Similar to previous years, no rooms have been blocked in a particular hotel.

Introduction

The National Alliance for Medical Image Computing (NAMIC), was founded in 2005 and chartered with building a computational infrastructure to support biomedical research as part of the NIH funded NCBC program. The work of this alliance has resulted in important progress in algorithmic research, an open source medical image computing platform 3D Slicer, enhancements to the underlying building blocks VTK, ITK, CMake, and CDash, and the creation of a community of algorithm researchers, biomedical scientists and software engineers who are committed to open science. This community meets twice a year in an open source hackathon event called Project Week.

Project Week is a semi-annual open source hackathon which draws 60-120 researchers. As of August 2014, it is a MICCAI endorsed event. The participants work collaboratively on open-science solutions for problems that lie on the interfaces of the fields of computer science, mechanical engineering, biomedical engineering, and medicine. In contrast to conventional conferences and workshops the primary focus of the Project Weeks is to make progress in projects (as opposed to reporting about progress). The objective of the Project Weeks is to provide a venue for this community of medical open source software creators. Project Weeks are open to all, are publicly advertised, and are funded through fees paid by the attendees. Participants are encouraged to stay for the entire event.

Project Week activities: Everyone shows up with a project. Some people are working on the platform. Some people are developing algorithms. Some people are applying the tools to their research problems. We begin the week by introducing projects and connecting teams. We end the week by reporting progress. In addition to the ongoing working sessions, breakout sessions are organized ad-hoc on a variety of special topics. These topics include: discussions of software architecture, presentations of new features and approaches and topics such as Image-Guided Therapy.

Several funded projects use the Project Week as a place to convene and collaborate. These include NAC, NCIGT, QIICR, and OCAIRO.

A summary of all previous Project Events is available here.

This project week is an event endorsed by the MICCAI society.

Please make sure that you are on the NA-MIC Project Week mailing list

Conference Calls for Preparation

Conference call phone number and notes are available here.

Agenda

Time	Monday, January 9	Tuesday, January 10	Wednesday, January 11	Thursday, January 12	Friday, January 13
	Project Presentations	Work on Projects	Work on Projects	Work on Projects	Reporting Day
8:30am		Breakfast	Breakfast	Breakfast	Breakfast
9:00am-10:30am		Clare Tempany led Image-Guided Therapy Discussion	9:00am-10:00am: Shape Analysis Breakout ---- ---- ---- ---- ---- ---- 10:00am-12:00pm: Luis Ibanez TensorFlow Workshop	Fiona Fennessy led Quantitative Imaging for Prostate Cancer Discussion
10:30am-12pm:	Sebastien Ourselin, PhD, UCL Talk				Project Reporting
12:00pm-1:00pm	Lunch	Lunch	Lunch	Lunch	Lunch boxes; Adjourn by 1:30pm
1:00-5:30pm	1:00pm-2:30pm: Project Presentations				1:30-2:30pm: AMIGO Tour
5:30pm	Adjourn for the day	Adjourn for the day	Adjourn for the day	Adjourn for the day Dinner on Thursday Night (Optional)

Calendar

The events are listed in the calendar below. Note that due to a current known limitation of our infrastructure, you will need to manually navigate to the week of January 8, 2017 to see the relevant events.

iCal (.ics) link: https://calendar.google.com/calendar/ical/kitware.com_sb07i171olac9aavh46ir495c4%40group.calendar.google.com/public/basic.ics

Projects

• Use this Updated Template for project pages

Learning and GPUs

• Needle Segmentation from MRI (Ziyang Wang, Guillaume Pernelle, Tina Kapur)
• Deep Learning for Synthetic MRI (Frank Preiswerk, Yaofei Wang (Vivian))

Web Technologies

• OAuth2.0 authentication in SlicerPathology (Erich Bremer)

Visualization

• Slicer & HoloLens (Adam Rankin)

IGT

• Tracked Ultrasound Standardization III: The Refining (Andras Lasso, Simon Drouin, Junichi Tokuda, Longquan Chen, Adam Rankin, Janne Beate Bakeng)
• WhiteMatterAnalysis New Module and Documentation (Fan Zhang, Shun Gong, Isaiah Norton, Ye Wu, Lauren J. O'Donnell)
• ROS Surface Scan (Tobias Frank, Junichi Tokuda, Longquan Chen)
• Open Source Electromagnetic Trackers (Peter Traneus Anderson)

Robotics in IGT

• OpenIGTLink for the Communications of Robotics Devices: Adding Kuka LWR connection to MeVisLab (Scheherazade Kraß (Shery), Junichi Tokuda, Longquan Chen, )

Craniofacial

• Web-based system to federate biological, clinical and morphological data (Juan Carlos Prieto, Clément Mirabel)

Infrastructure

• Slicer Qt5 and Python3 (Steve Pieper, Jean-Christophe Fillion-Robin, Andras Lasso, Andrey Fedorov)
• SlicerDMRI Testing and Documentation (Isaiah Norton, Fan Zhang, Shun Gong, Ye Wu, Lauren J. O'Donnell)
• Subject hierarchy refactoring (Csaba Pinter)
• IPFS and NoSQL for cloud databases (Hans Meine, Steve Pieper)
• DiPy integration in Slicer (Isaiah Norton, Lauren J. O'Donnell)

DICOM

• dcmqi library and DICOM QuantitativeReporting (Andrey Fedorov, Christian Herz, JC, Steve Pieper)

To be Categorized

• Slicer for Hyperspectral Ophthalmology Analysis (Sungmin Hong)
• Slicer for Shape Analysis (Beatriz Paniagua)
• Slicer support for interactive modification of 3D models (Johan Andruejol, Beatriz Paniagua)
• Upgrade Plastimatch extension (Greg Sharp)
• PyRadiomics library (Joost van Griethuysen, Hugo Aerts, Andrey Fedorov, Steve Pieper, Jean-Christope Fillion-Robin)
• Density-based DMRI registration (Henrik Groenholt Jensen, Lauren J. O'Donnell, Tina Kapur, Fan Zhang, Carl-Frederik Westin)
• Liver resection planning extension (Louise Oram)

Registrants

Do not add your name to this list - it is maintained by the organizers based on your paid registration. To register, visit this registration site.

1. A, Zeina :: SHBOUL
2. Aerts, Hugo :: DFCI-Harvard
3. Alam, Mahbubul :: Old Dominion University
4. Anderson, Peter :: Retired
5. Andruejol, Johan :: Kitware, Inc.
6. Bakeng, Janne Beate :: SINTEF
7. Beers, Andrew :: Massachusetts General Hospital
8. Bernal Rusiel, Jorge Luis :: Boston Children's Hospital
9. Bremer, Erich :: Stony Brook University
10. Cetin Karayumak, Suheyla :: Brigham and Women's Hospital
11. Chae, Michael :: Monash University
12. Chauvin, Laurent :: ETS
13. Dalca, Adrian :: Massachusetts Institute of Technology
14. Fedorov, Andriy :: Brigham and Women's Hospital
15. Fillion-Robin, Jean-Christophe :: Kitware, Inc.
16. Girault, Alexis :: Kitware, Inc.
17. Golland, Polina :: Massachusetts Institute of Technology
18. Gollub, Randy :: Massachusetts General Hospital
19. Gong, Shun :: Brigham and Women's Hospital
20. Guerrier de Dumast, Priscille :: University of Michigan
21. Harris, Gordon :: Massachusetts General Hospital
22. Herz, Christian :: Brigham and Women's Hospital
23. Hong, Sungmin :: New York University
24. Hosny, Ahmed :: Dana-Farber
25. Jagadeesan, Jayender :: Brigham and Women's Hospital
26. Kapur, Tina :: Brigham and Women's Hospital
27. Kikinis, Ron :: Brigham and Women's Hospital
28. Lisle, Curtis :: KnowledgeVis, LLC
29. Mastrogiacomo, Katie :: Brigham and Women's Hospital
30. Mateus, D. :: TUM
31. Mehrtash, Alireza :: Brigham and Women's Hospital
32. Meine, Hans :: University of Bremen
33. Meyer, Anneke :: University of Magdeburg
34. Miller, James :: GE Research
35. Mirabel, Clement :: University of Michigan
36. Nitsch, Jennifer :: University of Bremen
37. Norton, Isaiah :: Brigham and Women's Hospital
38. O'Donnell, Lauren :: Brigham and Women's Hospital
39. Oram, Louise :: The Intervention Centre-Oslo University Hospital
40. Paniagua, Beatriz :: Kitware, Inc.
41. Parmar, Chintan :: DFCI-Harvard Medical School
42. Peled, Sharon :: Brigham and Women's Hospital
43. Pieper, Steve :: Isomics, Inc.
44. Pinter, Csaba :: Queen's University
45. Preiswerk, Frank :: Brigham and Women's Hospital/Harvard Medical School
46. Pujol, Sonia :: Brigham and Women's Hospital/Harvard Medical School
47. Rankin, Adam :: Robarts Research Institute
48. Rheault, Francois :: Université de Sherbrooke
49. Sharp, Gregory :: Massachusetts General Hospital
50. Sridharan, Patmaa :: University of Pennsylvania-CBICA
51. Vidyaratne, Lasitha :: Old Dominion University
52. Ye, Wu :: Brigham and Women's Hospital
53. Zeleznik, Roman :: DFCI
54. Zhang, Fan :: Brigham and Women's Hospital
55. Zhang, Miaomiao :: Massachusetts Institute of Technology
56. Ziegler, Erik :: Open Health Imaging Foundation/Mass General Hospital