Difference between revisions of "2015 Winter Project Week"

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__NOTOC__
 
__NOTOC__
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Back to [[Events]]
  
 
[[image:PW-2015SLC.png|300px]]
 
[[image:PW-2015SLC.png|300px]]
  
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Welcome to the 20th Project week page!  
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=Welcome to the web page for the 20th Project week page! =
 +
==Summary==
 +
The 20th PROJECT EVENT It was held June 23-27, 2014 at MIT. It recorded 44 registered attendees, who worked on 42 projects. These attendees represented 11 academic sites (Brigham and Women’s Hospital, CNMS, Massachusetts General Hospital, University of Utah, University of Iowa, University of Michigan, University of North Carolina at Chapel Hill, Queen’s University, University of Kiel, Imperial College, Robarts Institute) and 4 companies (GE Global Research, Kitware, Koh Young, Isomics Inc).
  
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Dates: January 5-9, 2015.
+
A [[Project_Events#Past_Project_Weeks|summary]] of all past Project Events.
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Location: Salt Lake City, Utah
 
  
 +
== Note of Remembrance ==
 +
[[file:ferenc.jpg|right]]
 +
This project week is dedicated to Ferenc Jolesz MD, leader and mentor to many in the image guided therapy community.  There is a [http://ferenc.jolesz.muchloved.com/ tribute page] to Ferenc for people who want to share their thoughts.
  
 
== Introduction ==
 
== Introduction ==
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{| border="00" cellpadding="8" cellspacing="0"
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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 [http://www.ncbcs.org/ NCBC] program. The work of this alliance has resulted in important progress in algorithmic research, an open source medical image computing platform [http://www.slicer.org 3D Slicer], built  using [http://www.vtk.org VTK], [http://www.itk.org ITK], [http://www.cmake.org CMake], and [http://www.cdash.org 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.  
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|-
 
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| rowspan="2" align="left" | Project week is a [[Post-NCBC-2014|MICCAI endorsed event]].
 
  
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For more information about the project weeks in general, click [[Engineering:Programming_Events|'''here''']].  
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[[Engineering:Programming_Events|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.  
  
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For information about the January 2015 project week, see below.
+
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.
  
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For information about Utah as a travel destination click [http://www.utah.com '''here'''].
+
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]. The next event in this ongoing series will occur in [http://wiki.na-mic.org/Wiki/index.php/2015_Summer_Project_Week Barcelona, Spain] in June 2015.
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| style="background: #ebeced"  align="center"| [[Image:SLC.jpg|center|350px|View of the City]]
 
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|-
 
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| style="background: #ebeced"|The SLC 2015 Project Week will be held <br>'''January 5-9, 2015''', in '''Salt Lake City, UT.''' 
 
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|}
 
  
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== Dates, Venue, Registration ==
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This project week is an event [[Post-NCBC-2014|endorsed]] by the MICCAI society.
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{|
 
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|align="left" style="width:60%"|
 
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'''Dates:'''
 
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* Project Activities will be held between '''Monday, January 5th''' and '''Friday, January 9th'''.
 
  
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'''Registration:'''
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Please make sure that you are on the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list]
  
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'''Venue:'''
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== '''Logistics''' ==
 +
*'''Dates:''' January 5-9, 2015.
 +
*'''Location:''' Salt Lake City, Utah
 +
*'''REGISTRATION:''' Please click [http://umarket.utah.edu/ecom/checkout.tpl?App_Type=0046&Item_Num=WPW2015 '''here'''] to register online before December 24, 2014. All participants must pay a registration fee 550 USD, which covers our catering and facilities costs.
 +
*'''Venue:''' The venue for the meeting is the Marriott City Center, Salt Lake City, Utah. You can book online, by clicking [http://www.marriott.com/meeting-event-hotels/group-corporate-travel/groupCorp.mi?resLinkData=2015%20Winter%20Project%20Week^slccc%60namnama%60149%60USD%60false%601/4/15%601/10/15%6012/05/14&app=resvlink&stop_mobi=yes here.] The room rate for the meeting is 149 USD per night.
  
 
== Agenda==  
 
== Agenda==  
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{| border="1" cellpadding="5"
 
{| border="1" cellpadding="5"
 
|- style="background:#eeeeee; font-size:125%; color:#0063B6" align="center"  
 
|- style="background:#eeeeee; font-size:125%; color:#0063B6" align="center"  
 
| style="width:5%"| '''Time'''
 
| style="width:5%"| '''Time'''
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| style="width:15%" | '''Monday, January 5'''  
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| style="width:19%" | '''Monday, January 5'''  
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| style="width:15%" | '''Tuesday, January 6'''
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| style="width:19%" | '''Tuesday, January 6'''
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| style="width:15%" | '''Wednesday, January 7'''  
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| style="width:19%" | '''Wednesday, January 7'''  
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| style="width:35%" | '''Thursday, January 8'''
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| style="width:19%" | '''Thursday, January 8'''
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| style="width:15%" | '''Friday, January 9'''  
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| style="width:19%" | '''Friday, January 9'''  
 
|-
 
|-
 
| style="background:#eeeeee; color:black"|
 
| style="background:#eeeeee; color:black"|
−
| style="background:#ffffff; color:#522200"| '''[[2015_Winter_Project_Week|Project Activities]] ''' <br><font color="#44AA88">''(Olympus B)''</font>
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| style="background:#dbf3ff; color:#522200"| '''[[2015_Winter_Project_Week|Project Activities]] ''' <br><font color="#44AA88">''(Olympus B)''</font>
 
| style="background:#dbf3ff; color:#522200"| '''[[2015_Winter_Project_Week|Project Activities]] '''<br><font color="#44AA88">''(Olympus B)''</font>
 
| style="background:#dbf3ff; color:#522200"| '''[[2015_Winter_Project_Week|Project Activities]] '''<br><font color="#44AA88">''(Olympus B)''</font>
 
| style="background:#dbf3ff; color:#522200"| '''[[2015_Winter_Project_Week|Project Activities]] ''' <br><font color="#44AA88">''(Olympus B)''</font>
 
| style="background:#dbf3ff; color:#522200"| '''[[2015_Winter_Project_Week|Project Activities]] ''' <br><font color="#44AA88">''(Olympus B)''</font>
−
| style="background:#F2E5D3; color:#522200"| '''[[2015_Winter_Project_Week|Project Activities]] ''' <br><font color="#44AA88">''(Olympus B)''</font>
+
| style="background:#dbf3ff; color:#522200"| '''[[2015_Winter_Project_Week|Project Activities]] ''' <br><font color="#44AA88">''(Olympus B)''</font>
 
| style="background:#dbf3ff; color:#522200"| '''[[2015_Winter_Project_Week|Project Activities]] ''' <br><font color="#44AA88">''(Olympus B)''</font>
 
| style="background:#dbf3ff; color:#522200"| '''[[2015_Winter_Project_Week|Project Activities]] ''' <br><font color="#44AA88">''(Olympus B)''</font>
 
|-
 
|-
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| style="background:#dbf3ff; color:black"| Breakfast <br><font color="#BB9933">''(Olympus A)''</font>
 
| style="background:#dbf3ff; color:black"| Breakfast <br><font color="#BB9933">''(Olympus A)''</font>
 
| style="background:#dbf3ff; color:black"| Breakfast <br><font color="#BB9933">''(Olympus A)''</font>
 
| style="background:#dbf3ff; color:black"| Breakfast <br><font color="#BB9933">''(Olympus A)''</font>
−
| style="background:#F2E5D3; color:black"| Breakfast <br><font color="#BB9933">''(Olympus A)''</font>
+
| style="background:#dbf3ff; color:black"| Breakfast <br><font color="#BB9933">''(Olympus A)''</font>
 
| style="background:#dbf3ff; color:black"| Breakfast <br><font color="#BB9933">''(Olympus A)''</font>
 
| style="background:#dbf3ff; color:black"| Breakfast <br><font color="#BB9933">''(Olympus A)''</font>
 
|-
 
|-
 
| style="background:#eeeeee; color:black"|'''8:00-10:00'''  
 
| style="background:#eeeeee; color:black"|'''8:00-10:00'''  
 
| <br><font color="#9966cc"></font>
 
| <br><font color="#9966cc"></font>
−
|9-10am: [[2015 Winter Project Week DICOM Breakout|Breakout Session:DICOM]] (Steve Pieper) <br><font color="#44AA88">''(Amethyst 1)''</font> <br>   
+
|9-10am: [[2015 Winter Project Week COPD Breakout|Breakout Session: CIP]] (Raul San Jose) <br><font color="#44AA88">''(Amethyst 1)''</font> <br>   
−
|9-10am: [[2015 Winter Project Week QIICR Breakout|Breakout Session:QIICR]] (Andrey Fedorov) <br><font color="#44AA88">''(Amethyst 1)''</font> <br>   
+
|9-10am: [[2015 Winter Project Week QIICR and DICOM Breakout|Breakout Session:QIICR and DICOM]] (Andrey Fedorov, Steve Pieper) <br><font color="#44AA88">''(Amethyst 1)''</font> <br>   
 
| '''[[2015_Winter_Project_Week|Project Activities]] ''' <br><font color="#44AA88">''(Olympus B)''</font>
 
| '''[[2015_Winter_Project_Week|Project Activities]] ''' <br><font color="#44AA88">''(Olympus B)''</font>
 
| style="background:#dbf3ff; color:#522200"|[[2015_Winter_Project_Week|9am: Project Presentations]]<br><font color="#44AA88">''(Olympus B)''</font>
 
| style="background:#dbf3ff; color:#522200"|[[2015_Winter_Project_Week|9am: Project Presentations]]<br><font color="#44AA88">''(Olympus B)''</font>
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| style="background:#dbf3ff; color:black"| Coffee <br>''(General area)''
 
| style="background:#dbf3ff; color:black"| Coffee <br>''(General area)''
 
| style="background:#dbf3ff; color:black"| Coffee <br>''(General area)''
 
| style="background:#dbf3ff; color:black"| Coffee <br>''(General area)''
−
| style="background:#F2E5D3; color:black"| Coffee <br>''(General area)''
+
| style="background:#dbf3ff; color:black"| Coffee <br>''(General area)''
 
| style="background:#dbf3ff; color:black"| Coffee <br>''(General area)''
 
| style="background:#dbf3ff; color:black"| Coffee <br>''(General area)''
 
|-
 
|-
 
| style="background:#eeeeee; color:black"|'''10:30-12:00'''
 
| style="background:#eeeeee; color:black"|'''10:30-12:00'''
 
|  
 
|  
−
| Algorithms PI meeting <br><font color="#BB9933">''(Amethyst 2)''</font> 
+
| Neurosurgical Ultrasound Breakout 
−
| <br><font color="#44AA88">''(Amethyst 2)''</font> <br>  
+
|   
 
|  [[2015_Winter_Project_Week|Project Activities]] ''' <br><font color="#44AA88">''(Olympus B)''</font>
 
|  [[2015_Winter_Project_Week|Project Activities]] ''' <br><font color="#44AA88">''(Olympus B)''</font>
 
|
 
|
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| style="background:#dbf3ff; color:black"| Lunch <br><font color="#BB9933">''(Olympus A)''</font> <br>  
 
| style="background:#dbf3ff; color:black"| Lunch <br><font color="#BB9933">''(Olympus A)''</font> <br>  
 
| style="background:#dbf3ff; color:black"| Lunch <br><font color="#BB9933">''(Olympus A)''</font><br>  
 
| style="background:#dbf3ff; color:black"| Lunch <br><font color="#BB9933">''(Olympus A)''</font><br>  
−
| style="background:#F2E5D3; color:black"| Lunch <br><font color="#BB9933">''(Olympus A)''</font>
+
| style="background:#dbf3ff; color:black"| Lunch <br><font color="#BB9933">''(Olympus A)''</font>
 
| style="background:#dbf3ff; color:black"| Boxed Lunch and Adjourn <br><font color="#BB9933">''(Olympus A)''</font>  
 
| style="background:#dbf3ff; color:black"| Boxed Lunch and Adjourn <br><font color="#BB9933">''(Olympus A)''</font>  
 
|-
 
|-
−
| style="background:#eeeeee; color:black"|'''1:00-3:00'''l
+
| style="background:#eeeeee; color:black"|'''1:00-3:00'''
−
| style="background:#dbf3ff; color:#522200"|[[2015_Winter_Project_Week|Project Presentations]]<br><font color="#44AA88">''(Olympus B)''</font>
+
| style="background:#dbf3ff; color:#522200"| [http://ferenc.jolesz.muchloved.com/frame.aspx? A tribute to Ferenc Jolesz] <br> [[2015_Winter_Project_Week|Project Presentations]]<br><font color="#44AA88">''(Olympus B)''</font>  
−
| style="background:#dbf3ff; color:#522200"|[[2015_SLC_Training_Workshop|Slicer Training Workshop (Sonia Pujol, Ron Kikinis)]]
+
| style="background:#dbf3ff; color:#522200"|
 
| <font color="#44AA88">''(Olympus B)''</font>
 
| <font color="#44AA88">''(Olympus B)''</font>
 
|
 
|
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| style="background:#dbf3ff; color:black"| Coffee <br>''(General area)''
 
| style="background:#dbf3ff; color:black"| Coffee <br>''(General area)''
 
| style="background:#dbf3ff; color:black"| Coffee <br>''(General area)''
 
| style="background:#dbf3ff; color:black"| Coffee <br>''(General area)''
−
| style="background:#F2E5D3; color:black"| Coffee <br>''(General area)''
+
| style="background:#dbf3ff; color:black"| Coffee <br>''(General area)''
 
| style="background:#ffffff; color:black"|
 
| style="background:#ffffff; color:black"|
 
|-
 
|-
 
| style="background:#eeeeee; color:black"|'''3:00-5:00'''  
 
| style="background:#eeeeee; color:black"|'''3:00-5:00'''  
 
|
 
|
−
|[[2015_Winter_Project_Week|Project Activities]] ''' <br><font color="#44AA88">''(Olympus B)''</font>
+
|3:15-4pm: [[2015_Winter_Project_Week_Segmentations_Breakout|Breakout Session: Segmentations]] <br><font color="#44AA88">''(Amethyst 1)'' <br> <!--[[2015_Winter_Project_Week|Project Activities]] ''' <br><font color="#44AA88">''(Olympus B)''</font>-->
−
| style="background:#ffffff; color:black"|
+
| 3:15-4pm: [[2015_Winter_Project_Week_Infrastructure_Breakout|Breakout Session: Infrastructure (JC, Steve, Alex, Hans, Raul)]] <br><font color="#44AA88">''(Amethyst 1)'' <br> <!--[[2015_Winter_Project_Week|Project Activities]] ''' <br><font color="#44AA88">''(Olympus B)''</font>-->
 
|[[2015_Winter_Project_Week|Project Activities]] ''' <br><font color="#44AA88">''(Olympus B)''</font>
 
|[[2015_Winter_Project_Week|Project Activities]] ''' <br><font color="#44AA88">''(Olympus B)''</font>
 
| style="background:#ffffff; color:black"|
 
| style="background:#ffffff; color:black"|
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| style="background:#dbf3ff; color:black"|
 
| style="background:#dbf3ff; color:black"|
 
| style="background:#dbf3ff; color:black"|
 
| style="background:#dbf3ff; color:black"|
−
| style="background:#F2E5D3; color:black"|'''6:00''' Optional: [http://www.murphysbarandgrillut.com/ Beer at Murphy's] (like last year)
+
| style="background:#dbf3ff; color:black"|'''6:00''' Optional: [http://www.murphysbarandgrillut.com/ Beer at Murphy's] (like last year)
 
| style="background:#ffffff; color:black"|  
 
| style="background:#ffffff; color:black"|  
 
|}
 
|}
−
 
−
[http://www.marriott.com/hotels/event-planning/floor-plans/slccc-salt-lake-city-marriott-city-center/ Floorplan]
 
−
 
−
 
−
== '''Logistics''' ==
 
−
 
−
*'''Dates:''' January 5-9, 2015.
 
−
*'''Location:'''
 
−
*'''REGISTRATION:''' Coming Soon.
 
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*'''Hotel:'''
 
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== '''Background''' ==
 
−
 
−
 
−
Project Week is a hands on activity -- programming using the open source [[NA-MIC-Kit|NA-MIC Kit]], algorithm design, and clinical application -- that has become one of the major events in the NA-MIC, NCIGT, and NAC calendars. It is held in the summer at MIT, typically the last week of June, and a shorter version is held in Salt Lake City in the winter, typically the second week of January. 
 
−
 
−
Active preparation begins 6-8 weeks prior to the meeting, when a kick-off teleconference is hosted by the NA-MIC Engineering, Dissemination, and Leadership teams, the primary hosts of this event.  Invitations to this call are sent to all NA-MIC members, past attendees of the event, as well as any parties who have expressed an interest in working with NA-MIC. The main goal of the kick-off call is to get an idea of which groups/projects will be active at the upcoming event, and to ensure that there is sufficient NA-MIC coverage for all. Subsequent teleconferences allow the hosts to finalize the project teams, consolidate any common components, and identify topics that should be discussed in breakout sessions. In the final days leading upto the meeting, all project teams are asked to fill in a template page on this wiki that describes the objectives and plan of their projects.
 
−
 
−
The event itself starts off with a short presentation by each project team, driven using their previously created description, and allows all participants to be acquainted with others who are doing similar work. In the rest of the week, about half the time is spent in breakout discussions on topics of common interest of subsets of the attendees, and the other half is spent in project teams, doing hands-on programming, algorithm design, or clinical application of NA-MIC kit tools.  The hands-on activities are done in 10-20 small teams of size 3-5, each with a mix of experts in NA-MIC kit software, algorithms, and clinical.  To facilitate this work, a large room is setup with several tables, with internet and power access, and each team gathers on a table with their individual laptops, connects to the internet to download their software and data, and is able to work on their projects.  On the last day of the event, a closing presentation session is held in which each project team presents a summary of what they accomplished during the week.
 
−
 
−
A summary of all past NA-MIC Project Events is available [[Project_Events#Past|here]].
 
−
 
−
 
−
Please make sure that you are on the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list]
 
  
 
=Projects=
 
=Projects=
−
* [[2014_Project_Week_Template | Template for project pages]]
+
* [[2015_Project_Week:_Template | Template for project pages]]
  
 
==Image-Guided Therapy==
 
==Image-Guided Therapy==
 +
* [[2015_Winter_Project_Week:_Neurosurgery_Case_Review| Review of data from recent AMIGO US/MR neurosurgery]] (Steve Pieper, Jim Miller, Alireza Mehrtash, Sandy Wells, Tina Kapur, Ron Kikinis)
 +
* [[2015_Winter_Project_Week:_Benchtop_Nuerosurgery|Tracked ultrasound benchtop experimental system for neurosurgery]] (Steve Pieper, Jim Miller)
 +
* [[New Distance|A modified distance for measuring the similarity between fiber tracts]] (Ruizhi Liao, Lauren O'Donnell)
 +
* [[UKF Edema|Performance of UKF tractography in edema]] (Ruizhi Liao, Lauren O'Donnell)
 +
* [[ProstateNavigation workflow | Workflow for prostate navigation and its components]] (Peter Behringer, Andriy Fedorov)
 +
* [[NeedleFinder | Image-based Needle Detection from MRI]] (Andre Mastmeyer, Guillaume Pernelle, Tina Kapur, Steve Pieper, Ron Kikinis)
 +
* [[Needle Finder Tutorial | Needle Finder Tutorial]] (Gao Yang, Andre Mastmeyer, Guillaume Pernelle, Tina Kapur)
 +
*[[NeedlePlace | Workflow for percutaneous needle place]] (Bamshad Azizi, Li Ming, Li Ye, Kevin Cleary)
 +
*[[VR Radiology | Application of consumer virtual reality devices in creating environments for diagnostic radiology]] (Franklin King, Steve Pieper)
 +
*[[Distribution modeling | Summary statistics versus distributions: evaluating improved ability to detect clinical differences using DTI]] (Anuja Sharma, Guido Gerig)
 +
*[[Valve Replacement | Aortic valve replacement using tracked 3D ultrasound]] (Adam Rankin)
 +
*[[2015_Winter_Project_Week:CommunicationProtocolForOpticalTrackingWithSurfaceScan| Communication Protocol for Optical Tracking with Surface Scan]] (Junichi Tokuda, Sangyong Kim, ByungHyun Cho, Brian Nini, Nobuhiko Hata)
  
 +
== COPD ==
 +
* [[Slicer CIP | SlicerCIP Extension]] (Alex Yarmakovich, Jorge Onieva, Raul San Jose)
 +
* [[Nodule Sizing | Lung nodule sizing tool]] (Raul San Jose)
 +
* [[Density Inspector | Density Inspector]] (Alex Yarmakovich, Raul San Jose, Jorge Onieva)
 +
* [[PA/A Tool | Pulmonary Artery/Aorta measuring tool]] (Jorge Onieva, Rola Harmouche, German Gonzalez)
 +
* [[Picassa Snap | Picasa Snap: tagging your favorite slicer snapshots]] (Jorge Onieva)
 +
* [[Feature Extraction with Particles | Feature Extraction on ROIs based on Particles]] (Raul San Jose, James Ross)
 +
* [[ CIP and Nipype | CIP analysis pipelines in Nipype]] (Rola Harmouche, James Ross, Alex Yarmakovich)
 +
* [[Supervised Fissure Enhancement | Supervised fissure enhancement]] (James Ross, German Gonzalez, Rola Harmouche)
 +
* [[Organ Detection | Organ detection with OpenCV]] (German Gonzalez, James Ross, Raul San Jose)
  
 
==Huntington's Disease==
 
==Huntington's Disease==
 +
* [[PREDICT-HD Longitudinal Shape Analysis | PREDICT-HD Longitudinal Shape Analysis]] (Regina EY Kim, James Fishbaugh, Hans Johnson)
  
−
==TBI==
+
==CTE==
 +
* [[Slicer_Tract_Analysis | Measurement and visualization using white matter hierarchies in Slicer]] (Alexander Yarmarkovich, Lauren O'Donnell)
  
−
==Stroke==
+
== Lung ==
−
 
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*[[ Small lung nodule differential diagnosis using 3D Slicer | Small lung nodule differential diagnosis using 3D Slicer]] (Li Ming, Jay Jagadeesan)
−
==Cardiac==
 
−
 
 
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==Chronic Obstructive Pulmonary Disease, Lung, Chest ==
 
−
 
 
−
==Head and Neck Cancer / Radiotherapy ==
 
  
 
==[http://qiicr.org QIICR]==
 
==[http://qiicr.org QIICR]==
 +
* [[2015_Winter_Project_Week:_Multiframe_DICOM | Segmentation object and enhanced multiframe object IO in DCMTK and Slicer]] (Steve, Andrey, Michael)
 +
* [[T1 mapping for variable flip angle | T1 mapping for variable flip angle]] (Artem, Xiao, Andrey)
 +
* [[2015_Winter_Project_Week:_DICOM_representation_of_QIICR_Iowa_DBP_data|Representation of Iowa QIN data using DICOM]] (Andrey, Christian Bauer, Steve Pieper)
 +
* [[Whole Body PET/CT Reference Region segmentation]] (Christian Bauer)
 +
* [[2015_Winter_Project_Week:Bolus_Arrival_Time_Estimation_in_PK_Modelling|Bolus Arrival Time (BAT) Estimation in PK Modelling]] (Alireza Mehrtash, Andriy Fedorov, Jim Miller)
 +
* [[2015_Winter_Project_Week:DICOM_Module_Improvements|DICOM Module Improvements]] (Alireza Mehrtash, Andriy Fedorov, Ron Kikinis, Steve Pieper)
 +
* [[2015_Winter_Project_Week:Slice_View_Annotations|Slice View Annotations]] (Alireza Mehrtash, Andriy Fedorov, Steve Pieper)
  
 
==Feature Extraction==
 
==Feature Extraction==
−
 
+
* [[3D_SIFT_VIEW| 3D SIFT Feature Visualization in Slicer]] (Matthew Toews, Steve Pieper, Nicole Aucoin, Andriy Fedorov, Raul San Jose, William Wells)
−
==Additional Brain Image Analysis==
+
* [[Cortex_Clustering| Experimental tract-based cortical clustering ]] (Lauren O'Donnell, William Wells)
  
 
==Slicer4 Extensions==
 
==Slicer4 Extensions==
 +
* [[PET Tumor Segmentation]] (Christian Bauer)
  
  
 
==TMJOA RO1 - Collaboration with NAMIC==
 
==TMJOA RO1 - Collaboration with NAMIC==
 +
* [[2015_Winter_Project_Week:SlicerModelGlyphs | Display of point data vectors on Slicer models]] (Francois Budin, Steve Pieper)
  
 
==Infrastructure==
 
==Infrastructure==
  
 +
* [[2015_Winter_Project_Week:SlicerMicroMacroScale | Micro and Macro Scale in Slicer]] (Nicole Aucoin, Jim Miller, Bradley Lowekamp)
 +
* [[2015_Winter_Project_Week:Markups | Markups]] (Nicole Aucoin)
 +
* [[2015_Winter_Project_Week:Segmentations|Segmentations]] (Csaba Pinter)
 +
* [[2015_Winter_Project_Week:DICOM_References|DICOM references]] (Andrey Fedorov, Csaba Pinter, Steve Pieper)
 +
* [[2015_Winter_Project_Week:OpenAtlas|Open Atlas]] (Bill Lorensen)
 +
<!--
 +
* automatic indexing of CLI modules in Slicer's extension store for nice dashboards based on the [https://github.com/commontk/ctk-cli-indexer ctk-cli-indexer] (JC, maybe Hans Meine remotely)
 +
-->
 +
* [[2015_Winter_Project_Week:RemoveITKv3Compatibility|Remove ITKv3 Compatibility for 64-bit image support]] (Bradley Lowekamp, Hans Johnson, Bill Lorensen, JC)
 +
* [[2015_Winter_Project_Week:VersorTransforms|ITK Composed Versor Transforms]] (Bradley Lowekamp, Hans Johnson, Jim Miller)
  
 
== '''Registrants''' ==
 
== '''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.])
+
Do not add your name to this list - it is maintained by the organizers based on your paid registration.   
 +
 
 +
# Nicole Aucoin :: Brigham and Women's Hospital
 +
# Bamshad Azizi Koutenaei :: Children's National Health System
 +
# Christian Bauer :: University of Iowa
 +
# Peter Behringer :: Brigham and Women's Hospital
 +
# Francois Budin :: University of North Carolina
 +
# Xiao Da :: Massachusetts General Hospital
 +
# Andriy Fedorov :: Brigham and Women's Hospital
 +
# Jean-Christophe Fillion-Robin :: Kitware, Inc.
 +
# James Fishbaugh :: University of Utah
 +
# Yang Gao :: Brigham and Women's Hospital
 +
# German Gonzalez :: Brigham and Women's Hospital
 +
# Rola Harmouche :: Brigham and Women's Hospital
 +
# Hans Johnson :: University of Iowa
 +
# Tina Kapur :: Brigham and Women's Hospital
 +
# Ron Kikinis :: Brigham and Women's Hospital
 +
# Eun Young Regina Kim :: University of Iowa
 +
# Sangyong Kim :: Kohyoung Techonology
 +
# Franklin King :: Queen's University
 +
# Byunghyun Cho Koh :: Young Technology Inc.
 +
# Ming Li :: Brigham and Women's Hospital
 +
# Ye Li :: Brigham and Women's Hospital
 +
# Ruizhi Liao :: Brigham and Women's Hospital
 +
# Julia Lopinto :: University of Michigan
 +
# Bill Lorensen :: Bill's Basement
 +
# Bradley Lowekamp :: Medical Science & Computing Inc.
 +
# Lucie Macron :: University of Michigan
 +
# Artem Mamonov :: Massachusetts General Hospital
 +
# Andre Mastmeyer :: University of Keil
 +
# Alireza Mehrtash :: Brigham and Women's Hospital
 +
# James Miller :: General Electric
 +
# Lauren O'Donnell :: Brigham and Women's Hospital
 +
# Jorge Onieva :: Brigham and Women's Hospital
 +
# Guillaume Pernelle :: Imperial College London
 +
# Steve Pieper :: Isomics, Inc.
 +
# Csaba Pinter :: Queen's University
 +
# Adam Rankin :: Robarts Research Institute
 +
# James Ross :: Brigham and Women's Hospital
 +
# Raul San Jose Estepar :: Brigham and Women's Hospital
 +
# Anuja Sharma :: University of Utah
 +
# Matthew Toews :: Brigham and Women's Hospital
 +
# Junichi Tokuda :: Brigham and Women's Hospital
 +
# Bo Wang :: University of Utah
 +
# Sandy Wells :: Brigham and Women's Hospital
 +
# Alexander Yarmarkovich :: Brigham and Women's Hospital

Latest revision as of 15:50, 30 March 2017

Home < 2015 Winter Project Week

Back to Events

PW-2015SLC.png

Welcome to the web page for the 20th Project week page!

Summary

The 20th PROJECT EVENT It was held June 23-27, 2014 at MIT. It recorded 44 registered attendees, who worked on 42 projects. These attendees represented 11 academic sites (Brigham and Women’s Hospital, CNMS, Massachusetts General Hospital, University of Utah, University of Iowa, University of Michigan, University of North Carolina at Chapel Hill, Queen’s University, University of Kiel, Imperial College, Robarts Institute) and 4 companies (GE Global Research, Kitware, Koh Young, Isomics Inc).

A summary of all past Project Events.

Note of Remembrance

Ferenc.jpg

This project week is dedicated to Ferenc Jolesz MD, leader and mentor to many in the image guided therapy community. There is a tribute page to Ferenc for people who want to share their thoughts.

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. The next event in this ongoing series will occur in Barcelona, Spain in June 2015.

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

Logistics

  • Dates: January 5-9, 2015.
  • Location: Salt Lake City, Utah
  • REGISTRATION: Please click here to register online before December 24, 2014. All participants must pay a registration fee 550 USD, which covers our catering and facilities costs.
  • Venue: The venue for the meeting is the Marriott City Center, Salt Lake City, Utah. You can book online, by clicking here. The room rate for the meeting is 149 USD per night.

Agenda

Time Monday, January 5 Tuesday, January 6 Wednesday, January 7 Thursday, January 8 Friday, January 9
Project Activities
(Olympus B) 		Project Activities
(Olympus B) 		Project Activities
(Olympus B) 		Project Activities
(Olympus B) 		Project Activities
(Olympus B)
7:30-8:00 Breakfast
(Olympus A) 		Breakfast
(Olympus A) 		Breakfast
(Olympus A) 		Breakfast
(Olympus A)
8:00-10:00
9-10am: Breakout Session: CIP (Raul San Jose)
(Amethyst 1)
9-10am: Breakout Session:QIICR and DICOM (Andrey Fedorov, Steve Pieper)
(Amethyst 1)
Project Activities
(Olympus B) 		9am: Project Presentations
(Olympus B)
10:00-10:30 Coffee
(General area) 		Coffee
(General area) 		Coffee
(General area) 		Coffee
(General area)
10:30-12:00 Neurosurgical Ultrasound Breakout Project Activities
(Olympus B)
12:00-1:00 Lunch
(Olympus A) 		Lunch
(Olympus A)
Lunch
(Olympus A)
 Lunch
(Olympus A) 		Boxed Lunch and Adjourn
(Olympus A)
1:00-3:00 A tribute to Ferenc Jolesz
Project Presentations
(Olympus B) 		(Olympus B)
3:00-3:30 Coffee
(General area) 		Coffee
(General area) 		Coffee
(General area) 		Coffee
(General area)
3:00-5:00 3:15-4pm: Breakout Session: Segmentations
(Amethyst 1)
3:15-4pm: Breakout Session: Infrastructure (JC, Steve, Alex, Hans, Raul)
(Amethyst 1)
Project Activities
(Olympus B)
05:00-07:00 6:00 Optional: Beer at Murphy's (like last year)

Projects

Image-Guided Therapy

COPD

Huntington's Disease

CTE

Lung

QIICR

Feature Extraction

Slicer4 Extensions


TMJOA RO1 - Collaboration with NAMIC

Infrastructure

Registrants

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

  1. Nicole Aucoin :: Brigham and Women's Hospital
  2. Bamshad Azizi Koutenaei :: Children's National Health System
  3. Christian Bauer :: University of Iowa
  4. Peter Behringer :: Brigham and Women's Hospital
  5. Francois Budin :: University of North Carolina
  6. Xiao Da :: Massachusetts General Hospital
  7. Andriy Fedorov :: Brigham and Women's Hospital
  8. Jean-Christophe Fillion-Robin :: Kitware, Inc.
  9. James Fishbaugh :: University of Utah
  10. Yang Gao :: Brigham and Women's Hospital
  11. German Gonzalez :: Brigham and Women's Hospital
  12. Rola Harmouche :: Brigham and Women's Hospital
  13. Hans Johnson :: University of Iowa
  14. Tina Kapur :: Brigham and Women's Hospital
  15. Ron Kikinis :: Brigham and Women's Hospital
  16. Eun Young Regina Kim :: University of Iowa
  17. Sangyong Kim :: Kohyoung Techonology
  18. Franklin King :: Queen's University
  19. Byunghyun Cho Koh :: Young Technology Inc.
  20. Ming Li :: Brigham and Women's Hospital
  21. Ye Li :: Brigham and Women's Hospital
  22. Ruizhi Liao :: Brigham and Women's Hospital
  23. Julia Lopinto :: University of Michigan
  24. Bill Lorensen :: Bill's Basement
  25. Bradley Lowekamp :: Medical Science & Computing Inc.
  26. Lucie Macron :: University of Michigan
  27. Artem Mamonov :: Massachusetts General Hospital
  28. Andre Mastmeyer :: University of Keil
  29. Alireza Mehrtash :: Brigham and Women's Hospital
  30. James Miller :: General Electric
  31. Lauren O'Donnell :: Brigham and Women's Hospital
  32. Jorge Onieva :: Brigham and Women's Hospital
  33. Guillaume Pernelle :: Imperial College London
  34. Steve Pieper :: Isomics, Inc.
  35. Csaba Pinter :: Queen's University
  36. Adam Rankin :: Robarts Research Institute
  37. James Ross :: Brigham and Women's Hospital
  38. Raul San Jose Estepar :: Brigham and Women's Hospital
  39. Anuja Sharma :: University of Utah
  40. Matthew Toews :: Brigham and Women's Hospital
  41. Junichi Tokuda :: Brigham and Women's Hospital
  42. Bo Wang :: University of Utah
  43. Sandy Wells :: Brigham and Women's Hospital
  44. Alexander Yarmarkovich :: Brigham and Women's Hospital
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