2016 Winter Project Week
Dates: January 4-8, 2016
Location: MIT, Cambridge, MA.
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 80-120 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
Agenda
| Time | Monday | Tuesday | Wednesday | Thursday | Friday |
|---|---|---|---|---|---|
| Project Presentations | Update Day | IGT Day | Reporting Day | ||
| 8:30am | Breakfast | Breakfast | Breakfast | Breakfast | |
| 9am-12pm | 10-11:30am Breakout Session: DICOM (Steve Pieper) |
11am-12noon Breakout Session: Slicer for users (Ron Kikinis)
|
9:00-10:30am Tutorial Contest Presentations (Sonia Pujol) Grier Rooms
|
10am-12pm: Project Progress Updates (Stata Building 4th Floor R&D Common Dining Area)
| |
| 12pm-1pm | Lunch | Lunch | Lunch | Lunch | Lunch boxes; Adjourn by 1:30pm |
| 1pm-5:30pm | 1-1:05pm: Ron Kikinis: Welcome
Grier Rooms
|
1-3pm: Breakout Session: QIICR (Andrey Fedorov) |
1-2:30pm: Breakout Session: Contours (Adam Rankin, Csaba Pinter) |
1-3pm: Breakout Session: Image-Guided Therapy - Prostate Interventions (Clare Tempany, Noby Hata) Star
|
|
| 5:30pm | Adjourn for the day | Adjourn for the day | Adjourn for the day | Adjourn for the day |
Projects
Image-Guided Therapy
- SlicerIGT extension: testing, tutorials, website (Tamas Ungi, Nobuhiko Hata, Tina Kapur)
- Robot Control With OpenIGTLink ( Gregory Fischer WPI, Nirav Patel WPI, Nobuhiko Hata BWH)
- Visual Guidance for Neurosurgery US Data Recording (Alireza, Isaiah, Rahul, Matthew, Tina, Steve, Sandy, Alex Golby)
- Gestural Point of Care Interface for IGT (Saskia, Franklin, Steve, Tobias, Andras)
- Steered image registration using intelligent interfaces for minimal user interaction (Marcel Prastawa, Jim Miller, Steve Pieper)
- CBC 3D I2M Conversion (Fotis Drakopoulos, Yixun Liu, Andrey Fedorov, Ron Kikinis, Nikos Chrisochoides)
- An ITK implementation of Physics-Based Non-Rigid Registration method for Brain Shift (Fotis Drakopoulos, Yixun Liu, Andriy Kot, Andrey Fedorov, Olivier Clatz, Ron Kikinis, Nikos Chrisochoides)
- Open-source electromagnetic trackers using OpenIGTLink (Peter Traneus Anderson, Tina Kapur, Sonia Pujol)
- Intraoperative Registration of preoperative CT and C-arm CT of the lung (Katharina Breininger, Jay Jagadeesan)
- Making realistic clinical story board for image guided skull base endoscopic surgery (Keryn Palmer, Nobuhiko Hata)
- PathExplorer Extension (code refactoring, documentation, tutorial) (Laurent Chauvin, Tamas Ungi, Nobuhiko Hata)
- MR-Ultrasound Registration for Prostate Interventions (Andriy Fedorov, Chenxi Zhang, Andras Lasso)
- Surface approximation from contour points (Chenxi Zhang, Csaba Pinter, Andrey Fedorov)
- Tools for Dysplasia Identification in Epilepsy (Luiz Murta; Emylin Souza; Tina Kapur; Ron Kikinis)
- Focused Ultrasound Pressure Sensor (Robin Kouver, Nassim Alikacem)
- Focused Ultrasound Positioner (Nassim Alikacem, Robin Kouver)
- Searching for Software Platform for Robotic Surgery (Yangming Li)
- Rapid Visualization of Large Image Collections (Adrian, Ramesh, Polina)
- Ventriculostomy Guidance with Transcranial Ultrasound (Jason White, Kirby Vosburgh, Can Meral, Alex Golby)
- Calibration of EM-tracked US acquisition using Plus (Andrey Fedorov, Tamas Ungi, Andras Lasso, Jay Jagadeesan)
Huntington's Disease
- Fiber Tract Dispersion and UKF Tractography (Peter Savadjiev, Yogesh Rathi, Hans Johnson, C-F Westin)
- 4D Segmentation for Longitudinal Consistency (Regina Kim, James Fishbaugh, Guido Gerig, Hans Johnson)
- Automated Prior-driven Segmentation QA (Dave Welch, Hans Johnson)
- Manual Segmentation QA (Dave Welch, Hans Johnson)
- Update BRAINSTools (BRAINSFit and DWIConvert) in Slicer (Hans Johnson, Dave Welch, Kent Williams, JC, Brad)
- Cardiac Agatston Scoring Extension (Jessica Forbes, Hans Johnson)
TBI
- Interactive segmentation for traumatic brain injury (Bo Wang, Marcel Prastawa, Andrei Irimia, John D. Van Horn, Guido Gerig)
Stroke
- Stroke Imaging Genetics (Adrian Dalca, Ramesh Sridharan, Polina Golland)
- Stroke Super Resolution (Adrian Dalca, Ramesh Sridharan, Polina Golland)
Cardiac
- MRI segmentation for congenital heart disease (Danielle Pace, Adrian Dalca, Polina Golland)
Chronic Obstructive Pulmonary Disease, Lung, Chest
- Pectoralis muscle segmentation (Rola Harmouche, James Ross, Raul San Jose)
- Image Registration with Sliding Motion Constraints (Alexander Derksen, Kanglin Chen, Gregory Sharp)
- Multiscale Non Local Means filter (NLM) for chest CT images (Pietro Nardelli, Raul San Jose)
Head and Neck Cancer / Radiotherapy
- ScalarBar vtk6 migration (Kevin Wang, Nicole)
- Upload H&N data (Greg Sharp, Paolo Zaffino)
- DIR stop and restart (Paolo Zaffino, Greg Sharp, Steve Pieper)
- Proton pencil beam dose calculation (Maxime Desplanques, Kevin Wang, Greg Sharp)
QIICR
- Real world value mapping support (Ethan, Andrey, Andras, Steve, Jim)
- Proper formatting of DICOM Derived Data from CLI (Steve, Andrey, Jim, {Michael and David remotely})
- DICOM SEG conversion to support archival of QIN Grand challenges results (Jayashree, Andrey, Steve, {David remotely})
- Color Bar Support for Slice Views (Alireza, Andrey, Steve, Kevin)
- Slicer DICOM Improvements (Alireza, Andrey, Steve, Ron)
Feature Extraction
- Breast Tumor Segmentation (Vivek Narayan, Jay Jagadeesan)
- Breast Tumor Heterogeneity Analysis (Vivek Narayan, Jay Jagadeesan)
- Quantitative image feature extraction in Non-Small Cell Lung Cancer (Hugo Aerts)
- Invariant Feature Methods in Slicer (Matthew Toews, Nicole Aucoin, Hans Johnson, Sandy Wells)
Additional Brain Image Analysis
- Shape Analysis for the developing murine skull (Murat Maga, Ryan Young, Seattle Chidren's Hospital).
- Slicer Interface to LDDMM shape anlaysis (Saurabh Jain, JHU; Steve Pieper, Isomics; Josh Cates, SCI, Utah; Hans Johnson, Iowa; Martin Styner, UNC)
- Atlas Selection (Kanglin Chen, Gregory Sharp)
- CAD Toolbox for Neurological Disorders (Sidong Liu, Siqi Liu, Fan Zhang, Yang Song, Weidong Cai, Sonia Pujol, Ron Kikinis)
- Longitudinal patient-specific DTI analysis using Slicer for neonatal asphyxia (Anuja Sharma, SCI, Utah; Francois Budin, UNC; Martin Styner, UNC; Guido Gerig, SCI, Utah)
- Pipeline Visualization (Ramesh, Adrian, Polina)
Slicer4 Extensions
- Multidimensional Data (Andras Lasso, Kevin Wang)
- DICOM-SRO import/export (Kevin Wang, Greg Sharp)
- Integrating DRAMMS deformable registration into Slicer (Yangming Ou, Steve Pieper, Andriy Fedorov, Tina Kapur, Christos Davatzikos, Ron Kikinis, Randy Gollub, Jayashree Kalpathy-Cramer)
TMJOA RO1 - Collaboration with NAMIC
- TMJOA (Francois Budin, Beatriz Paniagua, Lucia Cevidanes, Nicole Aucoin, Steve Pieper, Jean-Christophe Fillion-Robin, Alex Yarmarkovich)
Infrastructure
- Chronicle (Steve)
- Post NA-MIC Factory and Testing (Steve, Jc, Ron)
- Volume Registration (Steve, Greg, Marcel, Jim)
- Markups (Nicole Aucoin)
- Pluggable Label Statistics (Andrey , Ethan, Steve, Brad, Jim)
- Subject hierarchy integration (Csaba, Steve, Jc, Andras)
- Contours (Adam Rankin, Csaba, Andras, Steve, Jc)
- Parameter Node Serialization (Kevin Wang, Steve, Jim, Jc, Matt, Nicole)
- Self-tests for non-linear transforms (Xining Du)
- Slicer Tutorial Updates (Parth Amin, Farukh Kohistan, Sonia Pujol)
Logistics
- Dates: January 4-8, 2016
- Location: MIT
- REGISTRATION: https://www.regonline.com/namic2016winterprojectweek. Please note that as you proceed to the checkout portion of the registration process, RegOnline will offer you a chance to opt into a free trial of ACTIVEAdvantage -- click on "No thanks" in order to finish your Project Week registration.
- 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. (Please click here to register.)
