Difference between revisions of "2016 Summer Project Week"

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__NOTOC__
 
__NOTOC__
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Back to [[Events]]
  
 
[[image:PW-Summer2016.png|300px]]
 
[[image:PW-Summer2016.png|300px]]
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<br><br>
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=Welcome to the web page for the 23rd Project Week!=
 
=Welcome to the web page for the 23rd Project Week!=
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The 23rd Project Week is being held in conjunction with the [http://www.ipcai.org/ IPCAI 2016]  conference that is hosted by the [http://www.cars-int.org/ 30th International Conference on Computer Assisted Radiology and Surgery] (CARS), in Heidelberg, Germany.
 
  
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==Logistics==
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*Fill out the [https://hms.az1.qualtrics.com/jfe/form/SV_6gK6BFe4Ivfo9RH survey] about this project weeks today!
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*'''Dates:''' Monday June 20th to Saturday June 25th, 2016, with one day break on June 21st for IPCAI.
+
*Hold January 9-13, 2017 for [[2017_Winter_Project_Week|24th Project Week]] at MIT.  
−
*'''Location:''' Heidelberg, Germany. '''Monday''' at German Cancer Research Center - DKFZ, '''Tuesday''' there is '''no''' organized Project Week activity due to IPCAI @ CARS, '''Wednesday-Saturday''' at the Congress Hall of CARS.
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*Hold June 26-30, 2017 for [[2017_Summer_Project_Week|25th Project Week]] in Europe.  
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*'''REGISTRATION:''' Please register by adding your name to the list at the end of this page
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*Add photos from this week [https://goo.gl/photos/Dhx6Fdei27NZe2rX9 here].
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*'''Registration Fee:''' TBD
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==Summary==
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*'''Hotel:''' TBD
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The 23rd Project Week open source hackathon was held in conjunction with the [http://www.cars-int.org/ 30th International Conference on Computer Assisted Radiology and Surgery] (CARS) and the [http://www.ipcai.org/ IPCAI 2016]  conferences in Heidelberg, Germany.  Please go through this page for information, and if you have questions, please contact [https://www.spl.harvard.edu/pages/People/tkapur Tina Kapur, PhD].
  
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==Agenda==
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A [[Project_Events#Past_Project_Weeks|summary]] of all past Project Events.
 +
 
 +
='''Agenda'''=
 
<font color="maroon">Please note that on '''Tuesday'''  there is no organized Project Week activity due to IPCAI @ CARS</font>
 
<font color="maroon">Please note that on '''Tuesday'''  there is no organized Project Week activity due to IPCAI @ CARS</font>
 
{|border="1"
 
{|border="1"
 
|-style="background:#b0d5e6;color:#02186f"
 
|-style="background:#b0d5e6;color:#02186f"
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!style="width:10%" |Time
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!style="width:7%" |Time
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!style="width:15%" |Monday, June 20 <br> DKFZ  
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!style="width:15%" |Monday, June 20 <br> [https://goo.gl/maps/e3ZbcsM5KC82 DKFZ]
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!style="width:15%" |Wednesday, June 22 <br> Congress Hall of CARS
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!style="width:3%" |Tuesday, June 21 <br> IPCAI
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!style="width:15%" |Thursday, June 23 <br> Congress Hall of CARS
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!style="width:15%" |Wednesday, June 22 <br> Congress Hall of CARS, Room Trübnersaal
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!style="width:15%" |Friday, June 24 <br> Congress Hall of CARS
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!style="width:15%" |Thursday, June 23 <br> Congress Hall of CARS, Room Trübnersaal
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!style="width:15%" |Saturday, June 25 <br> Congress Hall of CARS
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!style="width:15%" |Friday, June 24 <br> Congress Hall of CARS, Room Trübnersaal
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!style="width:15%" |Saturday, June 25 <br> Congress Hall of CARS, Room Trübnersaal
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|-
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|bgcolor="#ffffdd"|'''9:00am-10:00am'''
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|bgcolor="#ffffff"|
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|bgcolor="#ffffff"; rowspan="8"|
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|bgcolor="#ffffff"|[[{{FULLPAGENAME}}/Workshop_on_Shared_Software_Platform_for_Ultrasound-Guided_Medical_Interventions|Workshop: Ultrasound-guided interventions software platform (all day)]]
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|-
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|bgcolor="#ffffdd"|'''10:00am-10:30am'''
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|bgcolor="#f0e68b"| Coffee Break
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|bgcolor="#f0e68b"| Coffee Break
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|bgcolor="#f0e68b"| Coffee Break
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|bgcolor="#f0e68b"| Coffee Break
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|bgcolor="#f0e68b"| Coffee Break
 
|-
 
|-
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|bgcolor="#ffffdd"|'''9:00am-12:00pm'''
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|bgcolor="#ffffdd"|'''10:30-12pm'''
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|bgcolor="#ffffff"| 10:30am-12pm: Progress Review
 
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|-
 
|bgcolor="#ffffdd"|'''12:00pm-1:00pm'''
 
|bgcolor="#ffffdd"|'''12:00pm-1:00pm'''
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|bgcolor="#ffffaa"|Lunch
 
|bgcolor="#ffffaa"|Lunch
 
|bgcolor="#ffffaa"|Lunch
 
|bgcolor="#ffffaa"|Lunch
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|bgcolor="#ffffaa"|Lunch
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|bgcolor="#ffffaa"|Lunch and adjourn
 
|-
 
|-
 
|bgcolor="#ffffdd"|'''1:00pm-3:00pm'''
 
|bgcolor="#ffffdd"|'''1:00pm-3:00pm'''
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|bgcolor="#ffffff"| Welcome! <br> Project Introductions
 
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|bgcolor="#ffffff"; rowspan="4"|
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|-
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|bgcolor="#ffffdd"|'''3:00pm-3:30pm'''
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|bgcolor="#f0e68b"| Coffee Break
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|bgcolor="#f0e68b"| Coffee Break
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|bgcolor="#f0e68b"| Coffee Break
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|bgcolor="#f0e68b"| Coffee Break
 
|-
 
|-
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|bgcolor="#ffffdd"|'''3:00pm-5:00pm'''
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|bgcolor="#ffffdd"|'''3:30pm-5:00pm'''
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|bgcolor="#ffffff"|
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|bgcolor="#ffffff"| What does a Neurosurgeon need from technologists? (Alexandra Golby, MD)
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|bgcolor="#ffffff"|
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|bgcolor="#ffffff"| [[{{FULLPAGENAME}}/Breakout Session Slicer Extensions|Breakout Session: Slicer Extensions]] (JC, Steve)
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|bgcolor="#ffffff"|  
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|bgcolor="#ffffdd"|'''6:00pm'''
 
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|-
 
|-
 
|}
 
|}
  
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== '''Background''' ==
+
='''Projects'''=
−
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.
+
 
 +
* Note: Please use this [[2016_Summer_Project_Week_Template | template]] to create project pages
 +
 
 +
=== Worldwide Ultrasound Navigation ===
 +
Over the last several PWs, an international group has emerged for collaborative specification and development of ultrasound-based navigation for surgical and interventional radiology applications.  This group represents the leadership of ultrasound navigation technology from Queens University (PERK Lab, PLUS: Andras Lasso, Tamas Ungi, Csaba Pinter, Gabor Fichtinter), Montreal Neurologic Institute (Simon Drouin), Brigham and Women's Hospital/HMS (William Wells, Steve Pieper, Sarah Frisken), Robarts Research Institute, Western University (Terry Peters, Adam Rankin), Trondheim University and SINTEF (CustusX: Christian Askeland, Frank Lindseth).
 +
 
 +
* [[2016 Summer Project Week/Tracked Ultrasound Standardization | Tracked Ultrasound Standardization II: The Implementering]]  (Andras Lasso, Christian Askeland, Simon Drouin, Junichi Tokuda, Longquan Chen, Adam Rankin, Thomas Kirchner, Janne Beate Bakeng, Ole Vegard Solberg, Jon Eiesland)
 +
* [[2016 Summer Project Week/Guided Ultrasound Calibration | Guided Ultrasound Calibration]] (Elvis Chen, Inês Prata, Tamas Ungi)
 +
* [[2016 Summer Project Week/Integrating PLUS in applications using OpenIGTLink | Integrating PLUS in Applications using OpenIGTLink]]  (Christian Askeland, Janne Beate Bakeng, Ole Vegard Solberg, Jon Eiesland, Longquan Chen, Simon Drouin)
 +
 
 +
=== Simplified Human-Computer Interactions for Intra-Operative Usage===
 +
This theme focuses on infrastructure for simplified human-computer interactions for intra-operative usage. This includes Guidelets, simplified graphical user interfaces that can access the same backend as 3D Slicer; as well as interfaces for virtual reality/augmented reality devices from the consumer market that are that are improving by leaps and bounds and show promise for surgical use.
 +
 
 +
* [[2016 Summer Project Week/Guidelets | Guidelets (Slicelets for IGT)]] (Tamas Ungi, Andras Lasso, Thomas Vaughan)
 +
* [[2016 Summer Project Week/Slicelet For Ultrasound Acquisition | Slicelet for Ultrasound Acquisition]] (Sarah Frisken, Prashin Unadkat, Steve Pieper, Anna Roethe)
 +
* [[2016 Summer Project Week/OpenVR_integration | OpenVR Integration]] (Adam Rankin, Andras Lasso)
 +
* [[2016 Summer Project Week/AR with a tablet device in the surgical room | AR with a Tablet Device in the Surgical Room]] (David García, Javier Pascau)
 +
* [[2016 Summer Project Week/Auditory Display | Auditory Display Integration]] (David Black, Sarah Frisken, Christian Hansen, Longquan Chen)
 +
 
 +
===Machine Learning for IGT===
 +
This theme applies concepts from machine learning to image-guided therapy, including the application of convolutional neural networks for segmentation of mechanically implanted devices during surgery, and the use of Gaussian processes for estimation of uncertainty in image-fusion.
  
−
[[Engineering:Programming_Events|Project Week]] is a semi-annual event which draws researchers from around the world. 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.
+
* [[2016 Summer Project Week/Needle Segmentation from MRI | Needle Segmentation from MRI]] (Guillaume Pernelle, Paolo Zaffino, Salvatore Scaramuzzino, Maria Francesca Spadea, Tina Kapur)
 +
* [[2016 Summer Project Week/Uncertainty-aware Information Fusion | Uncertainty-aware Information Fusion for Real-time Soft Tissue Motion Estimation]] (Bojan Kocev, Sarah Frisken, Christian Hansen, William Wells)
  
−
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.
+
===IGT Other===
 +
* [[2016 Summer Project Week/SliceTracker | SliceTracker for Data Collection and Prostate Biopsy Support ]]  (Christian Herz, Peter Behringer, Andrey Fedorov)
 +
* [[2016 Summer Project Week/Intra-procedural prostate motion characterization | Prostate Motion Characterization ]] (Peter Behringer, Christian Herz, Andrey Fedorov)
 +
* [[2016 Summer Project Week/Structural-functional measurements | Structural - Functional Relationship Measurements of Tractography Data with fMRI ]] (Yannick Suter, Lauren J. O'Donnell)
 +
* [[2016 Summer Project Week/Sacral Neuromodulation | Sacral Neuromodulation ]] (Rocío López, Javier Pascau, Tamas Ungi)
 +
* [[2016 Summer Project Week/Histological Brain Atlas | Tool for the construction of an integrated brain atlas based on histology and MRI to aid Deep Brain Stimulation]] (Fernando Pérez García, Sara Fernandez Vidal, Sonia Pujol, Steve Pieper, Csaba Pinter, Andras Lasso)
 +
* [[2016 Summer Project Week/Integrating/Using OpenIGTLink for the communications of Robotics devices | Integrating/Using OpenIGTLink for the Communications of Robotics Devices]] (Scheherazade Kraß, Longquan Chen)
 +
* [[2016 Summer Project Week/Intraoperative Functional Guidance workflows in Neurosurgery | Intraoperative Functional Guidance Workflows in Neurosurgery]] (Prashin Unadkat, Sarah Frisken, Anna Roethe, Christian Hansen)
  
−
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], [http://ocairo.technainstitute.com/open-source-software-platforms-and-databases-for-the-adaptive-process/ OCAIRO], and [https://www.ncigt.org/IGTWiki/index.php/Projects/IGTWeb:R25 NCI Funded Image-Guided Fellowship Program].
+
=== Informatics ===
 +
This theme deals with creating data formats to enable medical image informatics. Led by the [http://qiicr.org/about.html QIICR project], the results will be made available in the DICOM for Quantitative Imaging (DCMQI) Library  for sharing quantitative image-processing results in a standardized way.  
  
−
A summary of all previous Project Events is available [[Project_Events#Past|here]].
+
* [[2016 Summer Project Week/dcmqi | DICOM for Quantitative Imaging (dcmqi) Library]] (Andrey Fedorov, Christian Herz, Marco Nolden, Hans Meine, Csaba Pinter, Steve Pieper, et al)
 +
* [[2016 Summer Project Week/DICOM Parametric Maps | Finalizing DICOM Parametric Map Implementation in DCMTK for QIICR project]] (Michael Onken, Jan Schlamelcher, Andrey Fedorov, Christian Herz)
 +
* [[2016 Summer Project Week/MeVisLab SEG Colors | Support Reading and Writing DICOM Tags for SEG Properties]] (Hans Meine, Andrey Fedorov, Christian Herz, Steve Pieper)
 +
* [[2016 Summer Project Week/Segmentation Editor and Terminology | Segmentation Editor and Terminology]] (Nicole Aucoin, Andrey Fedorov, Csaba Pinter, Andras Lasso, Marco Nolden, Christian Herz)
  
−
This project week is an event [[Post-NCBC-2014|endorsed]] by the MICCAI society.
+
=== Infrastructure ===
 +
Improvements to the core functionality of widely used open source tools is an on-going theme.
  
−
The 23rd Project Week is being held in conjunction with the [http://www.ipcai.org/ IPCAI 2016] conference that is hosted by the [http://www.cars-int.org/ 30th International Conference on Computer Assisted Radiology and Surgery] (CARS).
+
* [[2016 Summer Project Week/medical imaging webapp | Medical Imaging WebApp Software]] (Steve Pieper, Marco Nolden, Hans Meine)
 +
* [[2016 Summer Project Week/3D Lasso Selection | Implementation and Testing Performance of 3-D Lasso Selection within the Segmentation Editor Infrastructure ]] (Davide Punzo, Csaba Pinter, Andras Lasso, Steve Pieper)
 +
* [[2016 Summer Project Week/Segmentations Integration | Integration of Segmentations Infrastructure and Related Modules to Slicer Core]] (Csaba Pinter, Andras Lasso)
 +
* [[2016 Summer Project Week/DICOM Tractography Results | Finalizing DICOM Tractography Results Implementation in DCMTK for BWH Project]] (Lauren O'Donnell, Isaiah Norton, Michael Onken)
 +
* [[2016 Summer Project Week/Curve and Surface Creation from Fiducials|Curve and Surface Creation from Fiducials]] (Thomas Vaughan, Junichi Tokuda)
 +
* [[2016 Summer Project WEB and 3D DICOM viewer to the rest of us]] (Koji Kobayashi, Steve Pieper)
 +
* [[2016 Summer Project Week/CommonGL|CommonGL: GPU Rendering and Computation]] (Steve Pieper, Christian Askeland, Andra Lasso, Simon Drouin, Fernando Pérez García)
  
−
Please make sure that you are on the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list].
+
=== Tutorial===
 +
Creation of tutorials and documentation is an on-going theme.
  
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=Projects=
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* [[2016 Summer Project Week/SlicerDMRIDocumentation | Tutorials and Documentation in SlicerDMRI]] (Lauren J. O'Donnell, Fan Zhang, Isaiah Norton)
−
* [[2016_Summer_Project_Week_Template | Template for project pages]]
+
* [[2016 Summer Project Week/UniversityCourse | Create the basics of a university course about medical image computing]] (Attila Nagy)
 +
* [[2016 Summer Project Week/CameraTutorial | How to use Basler Cameras for Medical Applications]] (Peter Behringer, Santhirarajah Mathimugan, Steve Pieper)
  
 +
='''Logistics'''=
 +
*'''Dates:''' Monday June 20th to Saturday June 25th, 2016, with one day break on Tuesday June 21st to attend IPCAI.
 +
==Location==
 +
*'''Location:''' Heidelberg, Germany.
 +
**'''Getting to Heidelberg:''' Most will fly into Frankfurt Main International (FRA). At the airport look for "long distance trains". There you can buy a ticket from the machine to Heidelberg Hauptbahnhof (main station), around EUR 25. It usually takes less than an hour, with a change in Mannheim to a regional train. https://www.bahn.de . If you arrive on Sunday you can take a bus from the station to the Old Town or where your hotel is. Heidelberg is pretty small, look for directions on Google Maps. If you arrive on Monday see below on how to get to DKFZ directly.
 +
**'''Monday''' at German Cancer Research Center - DKFZ
 +
*** Enter through the main lobby ( just north of https://goo.gl/maps/e3ZbcsM5KC82, you can't miss it, it's the tallest building on campus with a big "dkfz." on top). The meeting room is on the 8th floor (H824, "Glaskasten", "glass box"). We will leave some instructions how to get there at the reception. The meeting time in the lobby will be 8:45am for those who wish to be at the meeting room by 9am.  Official activities will start at noon with lunch.
 +
*** To get to DKFZ in the morning you can use the Google Maps link above, public transport information is available there. For people staying in the Old Town,  near Bismarckplatz or coming from the station it will be most likely Bus #32, exit at stop "Chirurgische Klinik", which is the second one after crossing the Neckar river. More detailed timetables at [http://fahrplanauskunft.vrn.de/vrn/XSLT_TRIP_REQUEST2?language=en the local transportation services VRN]. If you are up early there is also a nice [https://goo.gl/maps/SRRG6x7KDNU2 walk along the river].
 +
**'''Tuesday''' there is '''no''' organized Project Week activity due to IPCAI @ CARS
 +
***Suggested place for meetings is the Marstall student center ([https://www.google.de/maps/place/Zeughaus-Mensa+im+Marstall/@49.4124525,8.7056926,349m/data=!3m1!1e3!4m5!3m4!1s0x0000000000000000:0x8fd41be2e27fc36e!8m2!3d49.412919!4d8.7044381 map])
 +
**'''Wednesday-Saturday''' at the Congress Hall of CARS.
 +
*'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html
 +
*'''Registration Fee:''' Euro 650 (after April 26, 2016)
 +
*'''Hotel:''' After registration, you can book hotels using the CARS organization at http://germany.nethotels.com/info/heidelberg/events/cars/default_en.htm or on your own.  Please remember that Project Week starts on Monday June 20th, even though the formal CARS/IPCAI program starts a day later, so you will need to pay attention while booking the hotel room.
 +
==Preparatory Conference Calls: ==
 +
**800-501-8979. The pin is 7327389. ([http://www.windstreambusiness.com/resources/user-guides/international-conferencing International dialing instructions are available here])
 +
**Call #1 Tuesday, May 10, 3pm Boston time.
 +
**Call #2 Tuesday, May 17, 3pm Boston time.
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**Call #3 Tuesday, May 31, 9am Boston time.
 +
**Call #4 Tuesday, Jun 7, 9am Boston time.
 +
**Call #5 Tuesday, Jun 14, 9am Boston time.
  
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==Equipment==
+
=='''Equipment'''==
 
*[[2016_Summer_Project_Week:Equipment|Specialized equipment people are going to bring]] (Please add to this list if you are bringing anything)
 
*[[2016_Summer_Project_Week:Equipment|Specialized equipment people are going to bring]] (Please add to this list if you are bringing anything)
 +
*[[2016_Summer_Project_Week:Equipment_Requests|Specialized equipment that people would like to have]] '''Updated June 16 2016'''
 +
 +
= '''Registrants''' =
 +
 +
'''REGISTRATION:''' Please add your name to this list if you are definitely planning to attend.  If you are not already on it, please add yourself to the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list]. We need to know the number of people at DKFZ, so if you are there on Monday, please add "(Mon)" next to your name.  Official registration for the event is through the CARS conference at http://www.cars-int.org/cars_2016/registration.html -- which you can do now or onsite.
  
−
==Projects==
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# Tina Kapur, Brigham and Women's Hospital, Harvard Medical School (BWH/HMS), Boston, USA :: tkapur@bwh.harvard.edu (Mon)
−
===Image-Guided Therapy===
+
# Ron Kikinis, BWH/HMS, Boston, USA and University of Bremen / Fraunhofer MEVIS, Germany :: kikinis@bwh.harvard.edu (Mon)
−
===Feature Based Image Analysis===
+
# Dženan Zukić, Kitware, USA :: dzenan.zukic@kitware.com
−
===Chest Imaging Platform===
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# Ines Prata Machado, MIT Portugal Program, Lisbon, Portugal :: ines7_prata@hotmail.com (Mon)
−
===QIICR===
+
# Sonia Pujol, BWH/HMS, Boston :: spujol@bwh.harvard.edu (Mon)
−
===Infrastructure===
+
# Scheherazade Kraß, PhD Student, [http://www.uni-bremen.de/ University of Bremen], [http://www.mic.uni-bremen.de/ Medical Image Computing] group, Germany :: shery@uni-bremen.de (Mon)
−
===Web===
+
# Maria Francesca Spadea [http://www.imagenglab.com ImagEngLab], Italy :: mfspadea@unicz.it (Mon)
−
===Astronomy===
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# Paolo Zaffino [http://www.imagenglab.com ImagEngLab], Italy  :: p.zaffino@unicz.it (Mon)
 +
# Salvatore Scaramuzzino [http://www.imagenglab.com ImagEngLab], Italy :: salvatorescaramuzzino@gmail.com (Mon)
 +
# Steve Pieper, Isomics, Inc., USA :: pieper@isomics.com (Mon)
 +
# Nicole Aucoin, BWH/HMS, Boston :: nicole@bwh.harvard.edu (Mon)
 +
# Simon Drouin, Montreal Neurological Institute :: simon.drouin@mail.mcgill.ca (Mon)
 +
# Thomas Kirchner, German Cancer Research Center :: t.kirchner@dkfz.de (Mon)
 +
# Elvis Chen, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada :: chene@imaging.robarts.ca (Mon)
 +
# Adam Rankin, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada :: arankin@robarts.ca (Mon)
 +
# Christian Askeland, SINTEF, Norway :: christian.askeland@gmail.com (Mon)
 +
# Hans Meine, University of Bremen / Fraunhofer MEVIS, Germany :: hans.meine@mevis.fraunhofer.de (Mon)
 +
# Longquan Chen, BWH/HMS, Boston, USA :: lchen@bwh.harvard.edu (Mon)
 +
# Davide Punzo, Kapteyn Astronomical Institute, Netherlands :: punzodavide@hotmail.it (Mon)
 +
# Lauren O'Donnell, BWH/HMS :: odonnell@bwh.harvard.edu (Mon)
 +
# Yannick Suter, BWH/HMS :: yannicksuter@bluewin.ch (Mon)
 +
# Junichi Tokuda, BWH/HMS :: tokuda@bwh.harvard.edu (Mon)
 +
# Sarah Frisken, BWH/HMS :: sfrisken@bwh.harvard.edu (Mon)
 +
# Prashin Unadkat, BWH/HMS :: punadkat@partners.org
 +
# Anna Roethe, Charite, Berlin
 +
# Michael Onken, Open Connections, Germany :: onken@open-connections.de (Mon)
 +
# Jan Schlamelcher, Open Connections/OFFIS, Germany
 +
# Janne Beate Bakeng, SINTEF, Norway ::  janne.beate.bakeng@sintef.no
 +
# Ole Vegard Solberg, SINTEF, Norway :: OleVegard.Solberg@sintef.no
 +
# Jon Eiesland, SINTEF, Norway
 +
# Tamas Ungi, Queen's University, Canada :: ungi@queensu.ca (Mon)
 +
# Andras Lasso, Queen's University, Canada :: lasso@queensu.ca (Mon)
 +
# Csaba Pinter, Queen's University, Canada :: pinter@cs.queensu.ca (Mon)
 +
# Thomas Vaughan, Queen's University, Canada :: vaughan.thomas.a@gmail.com (Mon)
 +
# Javier Pascau, Universidad Carlos III de Madrid, Spain :: jpascau@hggm.es (Mon)
 +
# Verónica García-Vazquez, Universidad Carlos III de Madrid, Spain :: vgarcia@hggm.es (Mon)
 +
# Mónica García-Sevilla, Universidad Carlos III de Madrid, Spain  :: mgsevilla@hggm.es (Mon)
 +
# David García-Mato, Universidad Carlos III de Madrid, Spain ::  dgmato@hggm.es (Mon)
 +
# Rocío López-Velazco, Universidad Carlos III de Madrid, Spain :: rlopez@hggm.es (Mon)
 +
# Raúl San José, BWH/HMS, Boston :: rsanjose@bwh.harvard.edu
 +
# Pietro Nardelii, BWH/HMS, Boston :: pietro@bwh.harvard.edu
 +
# Andrey Fedorov, BWH/HMS, Boston  :: fedorov@bwh.harvard.edu (Mon, Wed, Thu)
 +
# Christian Herz, BWH/HMS, Boston  :: cherz1@partners.org (Mon)
 +
# Frank Lindseth, NTNU/SINTEF, Norway :: Frank.Lindseth at sintef.no
 +
# Peter Behringer, Basler AG, Germany :: peterbehringer@gmx.de
 +
# Santhirarajah Mathimugan, Basler AG, Germany :: Santhirarajah.Mathimugan@baslerweb.com
 +
# Koji Kobayashi, Vocsis Corporation, Japan
 +
# David Black, University of Bremen / Fraunhofer MEVIS, Germany :: david.black@mevis.fraunhofer.de (Mon)
 +
# William Wells, BWH/HMS  :: sw@bwh.harvard.edu (Mon)
 +
# Attila Nagy, University of Szeged, Hungary ::  attila@orl.szote.u-szeged.hu (Mon)
 +
# Bojan Kocev, [http://www.uni-bremen.de/ University of Bremen], [http://www.mic.uni-bremen.de/ Medical Image Computing]group, Germany :: bkocev@uni-bremen.de (Mon)
 +
# Sara Fernández Vidal, [http://icm-institute.org/en/ Institute of the Brain and Spine], France :: sara.fernandez_vidal@upmc.fr (Mon)
 +
# Fernando Pérez García, [http://icm-institute.org/en/ Institute of the Brain and Spine], France (Mon)
 +
# Marco Nolden, [http://mbi.dkfz-heidelberg.de Medical and Biological Informatics, German Cancer Research Center] (Mon)
 +
# Christian Hansen, [http://isgwww.cs.uni-magdeburg.de/cas/ University of Magdeburg], Germany :: hansen@isg.cs.uni-magdeburg.de (Mon)
 +
# Julian Hettig, [http://isgwww.cs.uni-magdeburg.de/cas/ University of Magdeburg], Germany :: Julian.Hettig@ovgu.de (Mon)
 +
# Jorge Onieva, BWH/HMS,  Boston :: jonieva@bwh.harvard.edu
 +
# Caspar Goch, German Cancer Research Center (Mon)
  
−
== '''Registrants''' ==
+
'''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].'''
−
* Dženan Zukić, Kitware, USA
 
−
* Ines Prata Machado, MIT Portugal Program (PhD Student), Lisbon, Portugal.
 
−
Please add your name to the list. This is the registration mechanism for this project week.
 

Latest revision as of 15:50, 30 March 2017

Home < 2016 Summer Project Week

Back to Events

PW-Summer2016.png

Welcome to the web page for the 23rd Project Week!

Summary

The 23rd Project Week open source hackathon was held in conjunction with the 30th International Conference on Computer Assisted Radiology and Surgery (CARS) and the IPCAI 2016 conferences in Heidelberg, Germany. Please go through this page for information, and if you have questions, please contact Tina Kapur, PhD.

A summary of all past Project Events.

Agenda

Please note that on Tuesday there is no organized Project Week activity due to IPCAI @ CARS

Time Monday, June 20
DKFZ 		Tuesday, June 21
IPCAI 		Wednesday, June 22
Congress Hall of CARS, Room Trübnersaal 		Thursday, June 23
Congress Hall of CARS, Room Trübnersaal 		Friday, June 24
Congress Hall of CARS, Room Trübnersaal 		Saturday, June 25
Congress Hall of CARS, Room Trübnersaal
9:00am-10:00am Workshop: Ultrasound-guided interventions software platform (all day)
10:00am-10:30am Coffee Break Coffee Break Coffee Break Coffee Break Coffee Break
10:30-12pm 10:30am-12pm: Progress Review
12:00pm-1:00pm Lunch Lunch Lunch Lunch Lunch and adjourn
1:00pm-3:00pm Welcome!
Project Introductions
3:00pm-3:30pm Coffee Break Coffee Break Coffee Break Coffee Break
3:30pm-5:00pm What does a Neurosurgeon need from technologists? (Alexandra Golby, MD) Breakout Session: Slicer Extensions (JC, Steve)

Projects

  • Note: Please use this template to create project pages

Worldwide Ultrasound Navigation

Over the last several PWs, an international group has emerged for collaborative specification and development of ultrasound-based navigation for surgical and interventional radiology applications. This group represents the leadership of ultrasound navigation technology from Queens University (PERK Lab, PLUS: Andras Lasso, Tamas Ungi, Csaba Pinter, Gabor Fichtinter), Montreal Neurologic Institute (Simon Drouin), Brigham and Women's Hospital/HMS (William Wells, Steve Pieper, Sarah Frisken), Robarts Research Institute, Western University (Terry Peters, Adam Rankin), Trondheim University and SINTEF (CustusX: Christian Askeland, Frank Lindseth).

Simplified Human-Computer Interactions for Intra-Operative Usage

This theme focuses on infrastructure for simplified human-computer interactions for intra-operative usage. This includes Guidelets, simplified graphical user interfaces that can access the same backend as 3D Slicer; as well as interfaces for virtual reality/augmented reality devices from the consumer market that are that are improving by leaps and bounds and show promise for surgical use.

Machine Learning for IGT

This theme applies concepts from machine learning to image-guided therapy, including the application of convolutional neural networks for segmentation of mechanically implanted devices during surgery, and the use of Gaussian processes for estimation of uncertainty in image-fusion.

IGT Other

Informatics

This theme deals with creating data formats to enable medical image informatics. Led by the QIICR project, the results will be made available in the DICOM for Quantitative Imaging (DCMQI) Library for sharing quantitative image-processing results in a standardized way.

Infrastructure

Improvements to the core functionality of widely used open source tools is an on-going theme.

Tutorial

Creation of tutorials and documentation is an on-going theme.

Logistics

  • Dates: Monday June 20th to Saturday June 25th, 2016, with one day break on Tuesday June 21st to attend IPCAI.

Location

  • Location: Heidelberg, Germany.
    • Getting to Heidelberg: Most will fly into Frankfurt Main International (FRA). At the airport look for "long distance trains". There you can buy a ticket from the machine to Heidelberg Hauptbahnhof (main station), around EUR 25. It usually takes less than an hour, with a change in Mannheim to a regional train. https://www.bahn.de . If you arrive on Sunday you can take a bus from the station to the Old Town or where your hotel is. Heidelberg is pretty small, look for directions on Google Maps. If you arrive on Monday see below on how to get to DKFZ directly.
    • Monday at German Cancer Research Center - DKFZ
      • Enter through the main lobby ( just north of https://goo.gl/maps/e3ZbcsM5KC82, you can't miss it, it's the tallest building on campus with a big "dkfz." on top). The meeting room is on the 8th floor (H824, "Glaskasten", "glass box"). We will leave some instructions how to get there at the reception. The meeting time in the lobby will be 8:45am for those who wish to be at the meeting room by 9am. Official activities will start at noon with lunch.
      • To get to DKFZ in the morning you can use the Google Maps link above, public transport information is available there. For people staying in the Old Town, near Bismarckplatz or coming from the station it will be most likely Bus #32, exit at stop "Chirurgische Klinik", which is the second one after crossing the Neckar river. More detailed timetables at the local transportation services VRN. If you are up early there is also a nice walk along the river.
    • Tuesday there is no organized Project Week activity due to IPCAI @ CARS
      • Suggested place for meetings is the Marstall student center (map)
    • Wednesday-Saturday at the Congress Hall of CARS.
  • REGISTRATION: Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html
  • Registration Fee: Euro 650 (after April 26, 2016)
  • Hotel: After registration, you can book hotels using the CARS organization at http://germany.nethotels.com/info/heidelberg/events/cars/default_en.htm or on your own. Please remember that Project Week starts on Monday June 20th, even though the formal CARS/IPCAI program starts a day later, so you will need to pay attention while booking the hotel room.

Preparatory Conference Calls:

    • 800-501-8979. The pin is 7327389. (International dialing instructions are available here)
    • Call #1 Tuesday, May 10, 3pm Boston time.
    • Call #2 Tuesday, May 17, 3pm Boston time.
    • Call #3 Tuesday, May 31, 9am Boston time.
    • Call #4 Tuesday, Jun 7, 9am Boston time.
    • Call #5 Tuesday, Jun 14, 9am Boston time.

Equipment

Registrants

REGISTRATION: Please add your name to this list if you are definitely planning to attend. If you are not already on it, please add yourself to the na-mic-project-week mailing list. We need to know the number of people at DKFZ, so if you are there on Monday, please add "(Mon)" next to your name. Official registration for the event is through the CARS conference at http://www.cars-int.org/cars_2016/registration.html -- which you can do now or onsite.

  1. Tina Kapur, Brigham and Women's Hospital, Harvard Medical School (BWH/HMS), Boston, USA :: tkapur@bwh.harvard.edu (Mon)
  2. Ron Kikinis, BWH/HMS, Boston, USA and University of Bremen / Fraunhofer MEVIS, Germany :: kikinis@bwh.harvard.edu (Mon)
  3. Dženan Zukić, Kitware, USA :: dzenan.zukic@kitware.com
  4. Ines Prata Machado, MIT Portugal Program, Lisbon, Portugal :: ines7_prata@hotmail.com (Mon)
  5. Sonia Pujol, BWH/HMS, Boston :: spujol@bwh.harvard.edu (Mon)
  6. Scheherazade Kraß, PhD Student, University of Bremen, Medical Image Computing group, Germany :: shery@uni-bremen.de (Mon)
  7. Maria Francesca Spadea ImagEngLab, Italy :: mfspadea@unicz.it (Mon)
  8. Paolo Zaffino ImagEngLab, Italy :: p.zaffino@unicz.it (Mon)
  9. Salvatore Scaramuzzino ImagEngLab, Italy :: salvatorescaramuzzino@gmail.com (Mon)
  10. Steve Pieper, Isomics, Inc., USA :: pieper@isomics.com (Mon)
  11. Nicole Aucoin, BWH/HMS, Boston :: nicole@bwh.harvard.edu (Mon)
  12. Simon Drouin, Montreal Neurological Institute :: simon.drouin@mail.mcgill.ca (Mon)
  13. Thomas Kirchner, German Cancer Research Center :: t.kirchner@dkfz.de (Mon)
  14. Elvis Chen, Robarts Research Institute, Canada :: chene@imaging.robarts.ca (Mon)
  15. Adam Rankin, Robarts Research Institute, Canada :: arankin@robarts.ca (Mon)
  16. Christian Askeland, SINTEF, Norway :: christian.askeland@gmail.com (Mon)
  17. Hans Meine, University of Bremen / Fraunhofer MEVIS, Germany :: hans.meine@mevis.fraunhofer.de (Mon)
  18. Longquan Chen, BWH/HMS, Boston, USA :: lchen@bwh.harvard.edu (Mon)
  19. Davide Punzo, Kapteyn Astronomical Institute, Netherlands :: punzodavide@hotmail.it (Mon)
  20. Lauren O'Donnell, BWH/HMS :: odonnell@bwh.harvard.edu (Mon)
  21. Yannick Suter, BWH/HMS :: yannicksuter@bluewin.ch (Mon)
  22. Junichi Tokuda, BWH/HMS :: tokuda@bwh.harvard.edu (Mon)
  23. Sarah Frisken, BWH/HMS :: sfrisken@bwh.harvard.edu (Mon)
  24. Prashin Unadkat, BWH/HMS :: punadkat@partners.org
  25. Anna Roethe, Charite, Berlin
  26. Michael Onken, Open Connections, Germany :: onken@open-connections.de (Mon)
  27. Jan Schlamelcher, Open Connections/OFFIS, Germany
  28. Janne Beate Bakeng, SINTEF, Norway :: janne.beate.bakeng@sintef.no
  29. Ole Vegard Solberg, SINTEF, Norway :: OleVegard.Solberg@sintef.no
  30. Jon Eiesland, SINTEF, Norway
  31. Tamas Ungi, Queen's University, Canada :: ungi@queensu.ca (Mon)
  32. Andras Lasso, Queen's University, Canada :: lasso@queensu.ca (Mon)
  33. Csaba Pinter, Queen's University, Canada :: pinter@cs.queensu.ca (Mon)
  34. Thomas Vaughan, Queen's University, Canada :: vaughan.thomas.a@gmail.com (Mon)
  35. Javier Pascau, Universidad Carlos III de Madrid, Spain :: jpascau@hggm.es (Mon)
  36. Verónica García-Vazquez, Universidad Carlos III de Madrid, Spain :: vgarcia@hggm.es (Mon)
  37. Mónica García-Sevilla, Universidad Carlos III de Madrid, Spain :: mgsevilla@hggm.es (Mon)
  38. David García-Mato, Universidad Carlos III de Madrid, Spain :: dgmato@hggm.es (Mon)
  39. Rocío López-Velazco, Universidad Carlos III de Madrid, Spain :: rlopez@hggm.es (Mon)
  40. Raúl San José, BWH/HMS, Boston :: rsanjose@bwh.harvard.edu
  41. Pietro Nardelii, BWH/HMS, Boston :: pietro@bwh.harvard.edu
  42. Andrey Fedorov, BWH/HMS, Boston :: fedorov@bwh.harvard.edu (Mon, Wed, Thu)
  43. Christian Herz, BWH/HMS, Boston :: cherz1@partners.org (Mon)
  44. Frank Lindseth, NTNU/SINTEF, Norway :: Frank.Lindseth at sintef.no
  45. Peter Behringer, Basler AG, Germany :: peterbehringer@gmx.de
  46. Santhirarajah Mathimugan, Basler AG, Germany :: Santhirarajah.Mathimugan@baslerweb.com
  47. Koji Kobayashi, Vocsis Corporation, Japan
  48. David Black, University of Bremen / Fraunhofer MEVIS, Germany :: david.black@mevis.fraunhofer.de (Mon)
  49. William Wells, BWH/HMS :: sw@bwh.harvard.edu (Mon)
  50. Attila Nagy, University of Szeged, Hungary :: attila@orl.szote.u-szeged.hu (Mon)
  51. Bojan Kocev, University of Bremen, Medical Image Computinggroup, Germany :: bkocev@uni-bremen.de (Mon)
  52. Sara Fernández Vidal, Institute of the Brain and Spine, France :: sara.fernandez_vidal@upmc.fr (Mon)
  53. Fernando Pérez García, Institute of the Brain and Spine, France (Mon)
  54. Marco Nolden, Medical and Biological Informatics, German Cancer Research Center (Mon)
  55. Christian Hansen, University of Magdeburg, Germany :: hansen@isg.cs.uni-magdeburg.de (Mon)
  56. Julian Hettig, University of Magdeburg, Germany :: Julian.Hettig@ovgu.de (Mon)
  57. Jorge Onieva, BWH/HMS, Boston :: jonieva@bwh.harvard.edu
  58. Caspar Goch, German Cancer Research Center (Mon)

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

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