Difference between revisions of "2016 Winter Project Week"
| (2 intermediate revisions by the same user not shown) | |||
| Line 1: | Line 1: | ||
__NOTOC__ | __NOTOC__ | ||
| + | Back to [[Events]] | ||
| + | |||
[[image:PW-MIT2016.png|300px]] | [[image:PW-MIT2016.png|300px]] | ||
| − | |||
[[image:2016_Winter_Project_Week_Final_Day.JPG|1200px]] | [[image:2016_Winter_Project_Week_Final_Day.JPG|1200px]] | ||
| + | =Welcome to the web page for the 22nd Project Week!= | ||
==Summary== | ==Summary== | ||
| − | The 22nd PROJECT EVENT was held January 4-8, 2016 at MIT. It recorded 77 registered attendees, who worked on 47 projects. These attendees represented 17 academic sites (MIT, Brigham and Women’s Hospital, , École de Technologie Supérieure, (Canada), Massachusetts General Hospital, Queen’s University (Canada), Robarts Research Institute (Canada), University of Michigan, Montreal Neurosurgical Institute, Dana Farber Cancer Institute Boston, DKFZ - Heidelberg Cancer Research Center, JHU, University of Iowa, UNC Chapel Hill, WPI, | + | The 22nd PROJECT EVENT was held on January 4-8, 2016 at MIT. It recorded 77 registered attendees, who worked on 47 projects. These attendees represented 17 academic sites (MIT, Brigham and Women’s Hospital, , École de Technologie Supérieure, (Canada), Massachusetts General Hospital, Queen’s University (Canada), Robarts Research Institute (Canada), University of Michigan, Montreal Neurosurgical Institute, Dana-Farber Cancer Institute, Boston, DKFZ - Heidelberg Cancer Research Center, JHU, University of Iowa, UNC Chapel Hill, WPI, Children's National Medical Center Washington DC, Harvard IAIC, University of Colorado at Colorado Springs (UCCS), and 8 companies (Kitware, Isomics Inc, GE, Philips Research, MEVIS, HealthMyne, KnowledgeVis, SINTEF). |
| + | |||
| + | A [[Project_Events#Past_Project_Weeks|summary]] of all past Project Events. | ||
==Logistics== | ==Logistics== | ||
| Line 21: | Line 25: | ||
Several funded projects use the Project Week as a place to convene and collaborate. These include [http://nac.spl.harvard.edu/ NAC], [http://www.ncigt.org/ NCIGT], [http://qiicr.org/ QIICR], and [http://ocairo.technainstitute.com/open-source-software-platforms-and-databases-for-the-adaptive-process/ OCAIRO]. | Several funded projects use the Project Week as a place to convene and collaborate. These include [http://nac.spl.harvard.edu/ NAC], [http://www.ncigt.org/ NCIGT], [http://qiicr.org/ QIICR], and [http://ocairo.technainstitute.com/open-source-software-platforms-and-databases-for-the-adaptive-process/ OCAIRO]. | ||
| − | |||
| − | |||
This project week is an event [[Post-NCBC-2014|endorsed]] by the MICCAI society. | This project week is an event [[Post-NCBC-2014|endorsed]] by the MICCAI society. | ||
| − | Please make sure that you are on the [http://public.kitware.com/mailman/listinfo/na-mic-project-week | + | Please make sure that you are on the [http://public.kitware.com/cgi-bin/mailman/listinfo/na-mic-project-week NA-MIC Project Week mailing list]. |
==Agenda== | ==Agenda== | ||
Latest revision as of 15:50, 30 March 2017
Home < 2016 Winter Project WeekBack to Events
Welcome to the web page for the 22nd Project Week!
Summary
The 22nd PROJECT EVENT was held on January 4-8, 2016 at MIT. It recorded 77 registered attendees, who worked on 47 projects. These attendees represented 17 academic sites (MIT, Brigham and Women’s Hospital, , École de Technologie Supérieure, (Canada), Massachusetts General Hospital, Queen’s University (Canada), Robarts Research Institute (Canada), University of Michigan, Montreal Neurosurgical Institute, Dana-Farber Cancer Institute, Boston, DKFZ - Heidelberg Cancer Research Center, JHU, University of Iowa, UNC Chapel Hill, WPI, Children's National Medical Center Washington DC, Harvard IAIC, University of Colorado at Colorado Springs (UCCS), and 8 companies (Kitware, Isomics Inc, GE, Philips Research, MEVIS, HealthMyne, KnowledgeVis, SINTEF).
A summary of all past Project Events.
Logistics
- Dates: January 4-8, 2016
- Location: MIT CSAIL, Cambridge, MA. (Rooms: Kiva, R&D)
- REGISTRATION: Register here.
Introduction
Founded in 2005, the National Alliance for Medical Image Computing (NAMIC), was 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, built using 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 event called Project Week.
Project Week is a semi-annual event 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.
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.
Agenda
| Time | Monday, January 4 | Tuesday, January 5 | Wednesday, January 6 | Thursday, January 7 | Friday, January 8 |
|---|---|---|---|---|---|
| Project Presentations | Work on Projects | Work on Projects | IGT Day | Reporting Day | |
| 8:30am | Breakfast | Breakfast | Breakfast | Breakfast | |
| 9:00am-12:00pm | 10:30am-12pm: [Tutorial] Diffeomorphic registration and geodesic shooting methods (I). (Sarang Joshi) Room: 32-D507. |
10:00-11:30am: Breakout Session: Slicer Extensions Birds of a Feather |
10:00-11:30am: Breakout Session: Slicer for Medical Robotics Research
|
8:30-9:30am MR, US, Mass Spect guided Breast Surgery (Melissa Mallory, Nathalie Agar, Gabrielle Gauvin, Andras Lasso) 9:30-10:30am Clinical perspective on Image Guided Neurosurgery (Alexandra Golby) |
10:00am-12:00pm: Project Progress Updates Kiva
|
| 12:00pm-1:00pm | Lunch | Lunch | Lunch | Lunch | Lunch boxes; Adjourn by 1:30pm |
| 1:00-5:30pm | 1:00pm-1:05pm: Welcome Kiva
4:00-5:30pm: [Tutorial] Diffeomorphic registration geodesic shooting methods (II). (Sarang Joshi) |
1:00-2:30pm: Breakout Session: Diffusion MRI Kiva |
1:00-3:00pm: Breakout Session:What's Planned for Slicer Core Kiva |
AMIGO Tour | |
| 5:30pm | Adjourn for the day | Adjourn for the day | Adjourn for the day | Adjourn for the day (Optional) Dinner on Thursday Night |
Calendar
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
IGT
- 3D Slicer + ROS Integration (Junichi Tokuda, Axel Krieger, Simon Leonard, Jayender Jagadeesan)
- External Beam Radiotherapy Planning (Greg Sharp, others)
- CryoPlanning Module in Slicer (Jayender Jagadeesan, Steve Pieper, Sandy Wells)
- Tracked Ultrasound Standardization (Andras Lasso, Christian Askeland, Simon Drouin, Junichi Tokuda, Steve Pieper, Adam Rankin, Thomas Kirchner, Janek Groehl)
- Integration of CustusX with PLUS on BK System (Christian A, Andras Lasso, Adam Rankin)
- Integration of Plus and MITK (Thomas Kirchner, Janek Groehl)
- Integration of ImFusion MR-US Registration with BWH AMIGO Neurosurgery Setup (Sarah Frisken, Tina Kapur, Steve Pieper, Sandy Wells, Andras Lasso, Christian Askelan)
- Improvement of PLUS communication with Slicer (skip, see US standardization) (Adam Rankin)
- Prostate motion tracking and navigation in Slicer (Christian Herz, Andrey Fedorov, Andras Lasso)
- Measuring Anatomic Factors for Extraventricular Drain Placement (Kirby Vosburgh, P. Jason White)
- Localized GABA delivery via BBB disruption (Nick Todd)
- Sequences extension support for 3D+t NRRD (Adam Rankin)
Tractography
- Tractography Format Interoperability (Isaiah Norton, Michael Onken, Lauren O'Donnell, others)
- Slicer Diffusion MR / tractography workflow documentation (Pegah Kahaliardabili, Fan Zhang, Isaiah Norton, Lauren O'Donnell, others)
- Tractography Analysis Module Development and Testing (Fan Zhang, Pegah Kahaliardabili, Isaiah Norton, Lauren O'Donnell, others)
Image Analysis
- Interactive patch-based segmentation for congenital heart disease (Danielle Pace, Adrian Dalca, Polina Golland)
- Image Restoration via Patch GMMs (Adrian Dalca, Katie Bouman, Polina Golland)
- Patch Based Discrete Registration for Difficult Images (Adrian Dalca, Andreea Bobu, Polina Golland)
- Spherical Wavelet Shape Analysis (Yi Gao, Erich Bremer, Allen Tannenbaum, Ron Kikinis)
- Digital Pathology Nuclear Segmentation (Erich Bremer, Yi Gao, Nicole Aucoin, Andrey Fedorov)
- Moving beyond SlicerCMF and Future Projects (Beatriz Paniagua, Lucia Cevidanes, Steve Pieper, Juan Prieto)
- Chest Imaging Platform: COPD and Other Pulmonary Diseases (Raúl San José, Jorge Onieva, James Ross)
- Nipype Workflows for the Chest Imaging Platform (James Ross, Raúl San José)
- Cluster-Driven Segmentation of Lung Nodules (Vivek Narayan, Raúl San José, Daniel Blezek, Steve Pieper, Chintan Parmar)
- Batch Clinical Image Analysis (Sandy Wells, Kalli Retzepi, Yangming Ou, Matt Toews, Steve Pieper, Randy Gollub)
- Slicer OpenCV Extension (Nicole Aucoin, Erich Bremer, Andrey Fedorov)
- Interactive 4D Segmentation Module (Ethan Ulrich, Andrey Fedorov, Andras Lasso)
- Dynamic Susceptibility Contrast (DSC) MRI Analysis (Xiao Da, Yangming Ou, Andriy Fedorov, Steve Pieper, Jayashree Kalpathy-Cramer)
- Low-dimensional Principal Geodesic Analysis On the Manifold of Diffeomorphisms (Miaomiao Zhang, Polina Golland)
Infrastructure
- Upgrade the NAMIC + Slicer Web Infrastructure (Mike Halle, JC)
- Common Data Structure for CMF modules in Slicer (Jean-Baptiste Vimort, François Budin, Lucia Cevidanes, Beatriz Paniagua, Steve Pieper, Juan Prieto)
- Statistical Shape Modeling in Slicer: OA Index (Laura Pascal, Beatriz Paniagua, François Budin, Lucia Cevidanes, Steve Pieper, Juan Prieto)
- CommonGL (Steve Pieper, Jim Miller)
- Running CLI Modules in MeVisLab Asynchronously (Hans Meine)
- Interoperability Tests with BRAINSFit (or other interesting CLIs) in MeVisLab (Hans Meine, Steve Pieper)
- Kibana Dashboard for Browsing All Available CLI Modules (Hans Meine, JC?)
- Editor Widget using Segmentations (Csaba Pinter, Andras Lasso, Andrey Fedorov, Steve Pieper)
- Terminology Editor (Nicole Aucoin, Csaba Pinter, Andrey Fedorov)
- Integration of DICOM Segmentation Image Storage with Segmentations Module (Kyle Sunderland, Csaba Pinter, Andras Lasso, Andrey Fedorov, Steve Pieper?)
- Integration of Anaconda Python in Slicer (JC, Raúl San José, Jorge Onieva, Slicer Community?)
- Mechanism to Persist Clinical User Data from Different Modules Based on SQLite and/or other Database Engines (Raúl San José, Jorge Onieva)
- Workflow Module that Enables the Navigation and Data Sharing between Different Modules in a Clinical Workflow (Raúl San José, Jorge Onieva)
- Integration of Anaconda Python in Slicer (JC, Raúl San José, Jorge Onieva, Slicer Community?)
- AIM for Interoperability (Hans Meine, Andrey Fedorov, ??)
- Developing support for Enhanced MR in Slicer (Michael Onken, Andrey Fedorov)
- Improve CLI robustness and testing (Johan Andruejol)
- Exploring a collaboration in visualization (SK Semwal)
Logistics
- Dates: January 4-8, 2016
- Location: MIT, Kiva Conference room; 4th floor of Building 32.
- REGISTRATION: Register here. Registration Fee: $300.
- Hotel: Similar to previous years, no rooms have been blocked in a particular hotel.
- Room sharing: If interested, add your name to the list here
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.
- Nathalie Agar :: Brigham and Women's Hospital
- Peter Anderson :: Retired
- Johan Andruejol :: Kitware, Inc.
- Christian Askeland :: SINTEF
- Nicole Aucoin :: Brigham and Women's Hospital
- Daniel Blezek :: Isomics, Inc.
- Erich Bremer :: Stony Brook University
- Katharine Carter :: Brigham and Women's Hospital
- Lucia Cevidanes :: University of Michigan
- Ye Cheng :: Brigham and Women's Hospital
- Xiao Da :: Massachusetts General Hospital
- Adrian Dalca :: Massachusetts Institute of Technology
- Valentin Demeusy :: Brigham and Women's Hospital
- Sean Doyle :: Massachusetts General Hospital
- Simon Drouin :: Montreal Neurological Institute
- Andriy Fedorov :: Brigham and Women's Hospital
- Jean-Christophe Fillion-Robin :: Kitware, Inc.
- Tobias Frank :: Leibniz Universität Hannover
- Sarah Frisken :: Brigham and Women's Hospital
- Yi Gao :: Stony Brook University
- David Gering :: HealthMyne
- Daniel Glazer :: Brigham and Women's Hospital
- Polina Golland :: Massachusetts Institute of Technology
- Randy Gollub :: Massachusetts General Hospital
- Janek Groehl :: German Cancer Research Center
- Michael Halle :: Brigham and Women's Hospital
- Nobuhiko Hata :: Brigham and Women's Hospital
- Christian Herz :: Brigham and Women's Hospital
- Jayender Jagadeesan :: Brigham and Women's Hospital
- Ameet Jain :: Phillips Research
- Pegah Kahali :: Brigham and Women's Hospital
- Jayashree Kalpathy-Cramer :: Massachusetts General Hospital
- Tina Kapur :: Brigham and Women's Hospital
- Ron Kikinis :: Brigham and Women's Hospital
- Thomas Kirchner :: German Cancer Research Center
- Axel Krieger :: Children's National Medical Center
- Andras Lasso :: Queen's University
- Simon Leoard :: Johns Hopkins University
- Curtis Lisle :: KnowledgeVis, LLC
- Melissa Mallory :: Brigham and Women's Hospital
- Katie Mastrogiacomo :: Brigham and Women's Hospital
- Hans Meine :: Fraunhofer MEVIS, Bremen
- James Miller :: General Electric
- Vivek Narayan :: Dana Farber Cancer Institute
- Isaiah Norton :: Brigham and Women's Hospital
- Lauren O'Donnell :: Brigham and Women's Hospital
- Jorge Onieva :: Brigham and Women's Hospital
- Michael Onken :: Open Connections
- Danielle Pace :: Massachusetts Institute of Technology
- Beatriz Paniagua :: University of North Carolina
- Laura Pascal :: University of Michigan
- Nirav Patel :: Worcester Polytechnic Institute
- Steve Pieper :: Isomics, Inc.
- Csaba Pinter :: Queen's University
- Stuart Pomerantz :: Massachusetts General Hospital
- Sonia Pujol :: Brigham and Women's Hospital
- Adam Rankin :: Robarts Research Institute
- Kallirroi Retzepi :: Massachusetts General Hospital
- James Ross :: Brigham and Women's Hospital
- Raul San Jose Estepar :: Brigham and Women's Hospital
- Sudhanshu Semwal :: University of Colorado, Colorado Springs
- Gregory Sharp :: Massachusetts General Hospital
- Utsav Soni :: Brigham and Women's Hospital
- Kyle Sunderland :: Queen's University
- Nick Todd :: Brigham and Women's Hospital
- Matthew Toews :: Ecole de Technologie Superieure
- Junichi Tokuda :: Brigham and Women's Hospital
- Ethan Ulrich :: University of Iowa
- Prashin Unadkat :: Brigham and Women's Hospital
- Jean-Baptiste Vimort :: University of Michigan
- Kirby Vosburgh :: Brigham and Women's Hospital
- Carl-Fredrik Westin :: Brigham and Women's Hospital
- Jason White :: Brigham and Women's Hospital
- Kelli Xu :: Massachusetts Institute of Technology
- Terry Yoo :: National Library of Medicine
- Fan Zhang :: Brigham and Women's Hospital
- Miaomiao Zhang :: Massachusetts Institute of Technology
