https://www.na-mic.org/w/api.php?action=feedcontributions&user=Ungi&feedformat=atomNAMIC Wiki - User contributions [en]2024-03-28T14:43:13ZUser contributionsMediaWiki 1.33.0https://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week/Guidelets&diff=934222016 Summer Project Week/Guidelets2016-06-25T08:24:11Z<p>Ungi: </p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2016.png|[[2016_Summer_Project_Week#Projects|Projects List]]<br />
Image:Guidelet-Lumpectomy.png|Guidelet-based user interface of an application for navigated surgery<br />
Image:Guidelet-NeedleTraining.png|Guidelet-based user interface of an application for ultrasound-guided needle intervention training<br />
Image:LumpNav-Touchscreen.png|Intraoperative touchscreen user interface based on Guidelet<br />
</gallery><br />
<br />
==Investigators==<br />
* Tamas Ungi (Queen's University)<br />
* Andras Lasso (Queen's University)<br />
* Thomas Vaughan (Queen's University)<br />
* Sarah Frisken (BWH)<br />
* Rocío López (Universidad Carlos III de Madrid)<br />
* Javier Pascau (Universidad Carlos III de Madrid)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* The Guidelet base classes have been developed for IGT applications at the 2015 Summer Project Week by Andras Lasso and Laszlo Kanyasi. Since then, many applications were built using Guidelet to provide a full-screen, simplified GUI for IGT applications.<br />
* Review issues and requested features related in Guildelet-based applications<br />
* Provide developers' guide for those who wish to use Guidelet as a base for their applications.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Guidelet is part of the SlicerIGT extension, as a scripted (Python) module: https://github.com/SlicerIGT/SlicerIGT/tree/master/Guidelet<br />
* Guidelet users will meet several times during the week to discuss use cases and issues.<br />
* There will be a presentation about how to use Guidelets in the '''[http://www.na-mic.org/Wiki/index.php/2016_Summer_Project_Week/Workshop_on_Shared_Software_Platform_for_Ultrasound-Guided_Medical_Interventions Ultrasound breakout session]'''<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* A developers' guide has been added to the SlicerIGT website to specifically help in developing Guidelets: http://www.slicerigt.org/wp/developer-tutorial/<br />
* An [https://github.com/SlicerIGT/SlicerIGT/tree/master/ExampleGuidelet example (minimal) guidelet module] has been added to SlicerIGT to provide a starting point for new guidelet development.<br />
* Please send us your requests and questions to help us make the Guidelet platform and tutorial even better!<br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week/Guidelets&diff=934202016 Summer Project Week/Guidelets2016-06-25T08:22:42Z<p>Ungi: </p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2016.png|[[2016_Summer_Project_Week#Projects|Projects List]]<br />
Image:Guidelet-Lumpectomy.png|Guidelet-based user interface of an application for navigated surgery<br />
Image:Guidelet-NeedleTraining.png|Guidelet-based user interface of an application for ultrasound-guided needle intervention training<br />
Image:LumpNav-Touchscreen.png|Intraoperative touchscreen user interface based on Guidelet<br />
</gallery><br />
<br />
==Investigators==<br />
* Tamas Ungi (Queen's University)<br />
* Andras Lasso (Queen's University)<br />
* Thomas Vaughan (Queen's University)<br />
* Sarah Frisken (BWH)<br />
* Rocío López (Universidad Carlos III de Madrid)<br />
* Javier Pascau (Universidad Carlos III de Madrid)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* The Guidelet base classes have been developed for IGT applications at the 2015 Summer Project Week by Andras Lasso and Laszlo Kanyasi. Since then, many applications were built using Guidelet to provide a full-screen, simplified GUI for IGT applications.<br />
* Review issues and requested features related in Guildelet-based applications<br />
* Provide developers' guide for those who wish to use Guidelet as a base for their applications.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Guidelet is part of the SlicerIGT extension, as a scripted (Python) module: https://github.com/SlicerIGT/SlicerIGT/tree/master/Guidelet<br />
* Guidelet users will meet several times during the week to discuss use cases and issues.<br />
* There will be a presentation about how to use Guidelets in the '''[http://www.na-mic.org/Wiki/index.php/2016_Summer_Project_Week/Workshop_on_Shared_Software_Platform_for_Ultrasound-Guided_Medical_Interventions Ultrasound breakout session]'''<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* A developers' guide has been added to the SlicerIGT website to specifically help in developing Guidelets: http://www.slicerigt.org/wp/developer-tutorial/<br />
* An [https://github.com/SlicerIGT/SlicerIGT/tree/master/ExampleGuidelet example (minimal) guidelet module] has been added to SlicerIGT to provide a starting point for new guidelet development.<br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week/Guidelets&diff=934172016 Summer Project Week/Guidelets2016-06-25T08:20:21Z<p>Ungi: </p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2016.png|[[2016_Summer_Project_Week#Projects|Projects List]]<br />
Image:Guidelet-Lumpectomy.png|Guidelet-based user interface of an application for navigated surgery<br />
Image:Guidelet-NeedleTraining.png|Guidelet-based user interface of an application for ultrasound-guided needle intervention training<br />
Image:LumpNav-Touchscreen.png|Intraoperative touchscreen user interface based on Guidelet<br />
</gallery><br />
<br />
==Key Investigators==<br />
* Tamas Ungi (Queen's University)<br />
* Andras Lasso (Queen's University)<br />
* Thomas Vaughan (Queen's University)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* The Guidelet base classes have been developed for IGT applications at the 2015 Summer Project Week by Andras Lasso and Laszlo Kanyasi. Since then, many applications were built using Guidelet to provide a full-screen, simplified GUI for IGT applications.<br />
* Review issues and requested features related in Guildelet-based applications<br />
* Provide developers' guide for those who wish to use Guidelet as a base for their applications.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Guidelet is part of the SlicerIGT extension, as a scripted (Python) module: https://github.com/SlicerIGT/SlicerIGT/tree/master/Guidelet<br />
* Guidelet users will meet several times during the week to discuss use cases and issues.<br />
* There will be a presentation about how to use Guidelets in the '''[http://www.na-mic.org/Wiki/index.php/2016_Summer_Project_Week/Workshop_on_Shared_Software_Platform_for_Ultrasound-Guided_Medical_Interventions Ultrasound breakout session]'''<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* A developers' guide has been added to the SlicerIGT website to specifically help in developing Guidelets: http://www.slicerigt.org/wp/developer-tutorial/<br />
* An [https://github.com/SlicerIGT/SlicerIGT/tree/master/ExampleGuidelet example (minimal) guidelet module] has been added to SlicerIGT to provide a starting point for new guidelet development.<br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week/Guidelets&diff=934162016 Summer Project Week/Guidelets2016-06-25T08:19:06Z<p>Ungi: </p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2016.png|[[2016_Summer_Project_Week#Projects|Projects List]]<br />
Image:Guidelet-Lumpectomy.png|Guidelet-based user interface of an application for navigated surgery<br />
Image:Guidelet-NeedleTraining.png|Guidelet-based user interface of an application for ultrasound-guided needle intervention training<br />
Image:LumpNav-Touchscreen.png|Intraoperative touchscreen user interface based on Guidelet<br />
</gallery><br />
<br />
==Key Investigators==<br />
* Tamas Ungi (Queen's University)<br />
* Andras Lasso (Queen's University)<br />
* Thomas Vaughan (Queen's University)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* The Guidelet base classes have been developed for IGT applications at the 2015 Summer Project Week by Andras Lasso and Laszlo Kanyasi. Since then, many applications were built using Guidelet to provide a full-screen, simplified GUI for IGT applications.<br />
* Review issues and requested features related in Guildelet-based applications<br />
* Provide developers' guide for those who wish to use Guidelet as a base for their applications.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Guidelet is part of the SlicerIGT extension, as a scripted (Python) module: https://github.com/SlicerIGT/SlicerIGT/tree/master/Guidelet<br />
* Guidelet users will meet several times during the week to discuss use cases and issues.<br />
* There will be a presentation about how to use Guidelets in the '''[http://www.na-mic.org/Wiki/index.php/2016_Summer_Project_Week/Workshop_on_Shared_Software_Platform_for_Ultrasound-Guided_Medical_Interventions Ultrasound breakout session]'''<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* A developers' guide has been added to the SlicerIGT website to specifically help in developing Guidelets: http://www.slicerigt.org/wp/developer-tutorial/<br />
* An example (minimal) guidelet module has been added to SlicerIGT to provide a starting point for new guidelet development.<br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week/Workshop_on_Shared_Software_Platform_for_Ultrasound-Guided_Medical_Interventions&diff=932392016 Summer Project Week/Workshop on Shared Software Platform for Ultrasound-Guided Medical Interventions2016-06-22T14:15:40Z<p>Ungi: </p>
<hr />
<div>= Introduction =<br />
<br />
Several groups have developed ultrasound-guided intervention systems in the last two decades but until recently these groups have worked mostly in parallel, independently from each other. The Image Guided Systems Inter-Operability (IGSIO) group was founded in 2016 January after lengthy discussions regarding the standardization of tracked ultrasound communication to work towards improving the interoperability between industrial products and research software platforms. See more information about this effort at http://igsio.github.io/.<br />
<br />
The goal of this workshop is to promote the concept and practice of a shared software platform for ultrasound-guided interventions. Participants will learn, in practice, to build clinical applications using software platform tools.<br />
<br />
= Tentative agenda (keep checking this page for more details) =<br />
<br />
* 9-10am: Introduction of existing open-source infrastructure for building ultrasound-guided intervention systems<br />
** [[Media:Slicelets2016.pdf|Plus/SlicerIGT/3DSlicer (Andras Lasso)]]<br />
** CustusX<br />
** IBIS<br />
* 10.30am-12pm: Bring your own problem - discussion of implementation options for specific clinical procedures using open-source platforms.<br />
** EM needle guidance in breast brachytherapy (Thomas Vaughan)<br />
** Tracked ultrasound guided lumpectomy (Tamas Ungi)<br />
** <add your name and clinical application here><br />
* 1pm-2pm: Slicelets, guidelets<br />
** Slicelet example: Gel dosimetry slicelet [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry extension] ([https://app.assembla.com/spaces/slicerrt/subversion/source/HEAD/trunk/GelDosimetryAnalysis code])<br />
*** Specification & design: data-flow diagram defining the workflow steps that were eventually implemented - recommended way of design (on extension page)<br />
*** Tutorial slides and dataset (on extension page)<br />
* Afternoon: Hands-on session for setting up prototype systems for ultrasound guidance and tool navigation.<br />
<br />
= Registration =<br />
<br />
No registration is required, just add your name to the participant list below or send an email to Andras Lasso (lasso@queensu.ca).<br />
<br />
= Participants =<br />
* Christian Askeland<br />
* Janne Beate Bakeng<br />
* David Black<br />
* Longquan Chen<br />
* Lauren O'Donnell<br />
* Simon Drouin<br />
* Jon Eiesland<br />
* Sarah Frisken<br />
* Mónica García-Sevilla<br />
* Verónica García-Vazquez<br />
* Ron Kikinis<br />
* Thomas Kirchner<br />
* Bojan Kocev<br />
* Andras Lasso<br />
* Ines Machado<br />
* David García-Mato<br />
* Hans Meine<br />
* Javier Pascau<br />
* Steve Pieper<br />
* Csaba Pinter<br />
* Adam Rankin<br />
* Ole Vegard Solberg<br />
* Yannick Suter<br />
* Junichi Tokuda<br />
* Tamas Ungi<br />
* Thomas Vaughan<br />
* Rocío Lopez-Velasco<br />
* Frank Lindseth<br />
* Ingerid Reinertsen</div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week/Workshop_on_Shared_Software_Platform_for_Ultrasound-Guided_Medical_Interventions&diff=932382016 Summer Project Week/Workshop on Shared Software Platform for Ultrasound-Guided Medical Interventions2016-06-22T14:15:19Z<p>Ungi: </p>
<hr />
<div>= Introduction =<br />
<br />
Several groups have developed ultrasound-guided intervention systems in the last two decades but until recently these groups have worked mostly in parallel, independently from each other. The Image Guided Systems Inter-Operability (IGSIO) group was founded in 2016 January after lengthy discussions regarding the standardization of tracked ultrasound communication to work towards improving the interoperability between industrial products and research software platforms. See more information about this effort at http://igsio.github.io/.<br />
<br />
The goal of this workshop is to promote the concept and practice of a shared software platform for ultrasound-guided interventions. Participants will learn, in practice, to build clinical applications using software platform tools.<br />
<br />
= Tentative agenda (keep checking this page for more details) =<br />
<br />
* 9-10am: Introduction of existing open-source infrastructure for building ultrasound-guided intervention systems<br />
** [[Media:Slicelets2016.pdf|Plus/SlicerIGT/3DSlicer (Andras Lasso)]]<br />
** CustusX<br />
** IBIS<br />
* 10.30am-12pm: Bring your own problem - discussion of implementation options for specific clinical procedures using open-source platforms.<br />
** EM needle guidance in breast brachytherapy (Thomas Vaughan)<br />
** Tracked ultrasound guided lumpectomy (Tamas Ungi)<br />
** <add your name and clinical application here><br />
* 1pm-2pm: Slicelets, guidelets<br />
** Slicelet example: Gel dosimetry slicelet [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry extension] ([https://app.assembla.com/spaces/slicerrt/subversion/source/HEAD/trunk/GelDosimetryAnalysis code])<br />
*** Specification & design: data-flow diagram defining the workflow steps that were eventually implemented - recommended way of design (on extension page)<br />
*** Tutorial slides and dataset (on extension page)<br />
* Afternoon: Hands-on session for setting up prototype systems for ultrasound guidance and tool navigation.<br />
<br />
= Registration =<br />
<br />
No registration is required, just add your name to the participant list below or send an email to Andras Lasso (lasso@queensu.ca).<br />
<br />
= Participants =<br />
* Christian Askeland<br />
* Janne Beate Bakeng<br />
* David Black<br />
* Longquan Chen<br />
* Lauren O'Donnell<br />
* Simon Drouin<br />
* Jon Eiesland<br />
* Sarah Frisken<br />
* Mónica García-Sevilla<br />
* Verónica García-Vazquez<br />
* Thomas Kirchner<br />
* Bojan Kocev<br />
* Andras Lasso<br />
* Ines Machado<br />
* David García-Mato<br />
* Hans Meine<br />
* Javier Pascau<br />
* Steve Pieper<br />
* Csaba Pinter<br />
* Adam Rankin<br />
* Ole Vegard Solberg<br />
* Yannick Suter<br />
* Junichi Tokuda<br />
* Tamas Ungi<br />
* Thomas Vaughan<br />
* Rocío Lopez-Velasco<br />
* Frank Lindseth<br />
* Ingerid Reinertsen</div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week/Workshop_on_Shared_Software_Platform_for_Ultrasound-Guided_Medical_Interventions&diff=931882016 Summer Project Week/Workshop on Shared Software Platform for Ultrasound-Guided Medical Interventions2016-06-21T21:04:08Z<p>Ungi: </p>
<hr />
<div>= Introduction =<br />
<br />
Several groups have developed ultrasound-guided intervention systems in the last two decades but until recently these groups have worked mostly in parallel, independently from each other. The Image Guided Systems Inter-Operability (IGSIO) group was founded in 2016 January after lengthy discussions regarding the standardization of tracked ultrasound communication to work towards improving the interoperability between industrial products and research software platforms. See more information about this effort at http://igsio.github.io/.<br />
<br />
The goal of this workshop is to promote the concept and practice of a shared software platform for ultrasound-guided interventions. Participants will learn, in practice, to build clinical applications using software platform tools.<br />
<br />
= Tentative agenda (keep checking this page for more details) =<br />
<br />
* 9-10am: Introduction of existing open-source infrastructure for building ultrasound-guided intervention systems<br />
** Plus/SlicerIGT/3DSlicer (Andras Lasso)<br />
** CustusX<br />
** IBIS<br />
* 10.30am-12pm: Bring your own problem - discussion of implementation options for specific clinical procedures using open-source platforms.<br />
** EM needle guidance in breast brachytherapy (Thomas Vaughan)<br />
** Tracked ultrasound guided lumpectomy (Tamas Ungi)<br />
** <add your name and clinical application here><br />
* Afternoon: Hands-on session for setting up prototype systems for ultrasound guidance and tool navigation.<br />
<br />
= Registration =<br />
<br />
No registration is required, just add your name to the participant list below or send an email to Andras Lasso (lasso@queensu.ca).<br />
<br />
= Participants =<br />
* Christian Askeland<br />
* Janne Beate Bakeng<br />
* Longquan Chen<br />
* Simon Drouin<br />
* Jon Eiesland<br />
* Thomas Kirchner<br />
* Adam Rankin<br />
* Ole Vegard Solberg<br />
* Junichi Tokuda<br />
* Sarah Frisken<br />
* Bojan Kocev<br />
* Ines Machado<br />
* Tamas Ungi</div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week/Guidelets&diff=930692016 Summer Project Week/Guidelets2016-06-20T10:45:41Z<p>Ungi: </p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2016.png|[[2016_Summer_Project_Week#Projects|Projects List]]<br />
Image:Guidelet-Lumpectomy.png|Guidelet-based user interface of an application for navigated surgery<br />
Image:Guidelet-NeedleTraining.png|Guidelet-based user interface of an application for ultrasound-guided needle intervention training<br />
Image:LumpNav-Touchscreen.png|Intraoperative touchscreen user interface based on Guidelet<br />
</gallery><br />
<br />
==Key Investigators==<br />
* Tamas Ungi (Queen's University)<br />
* Andras Lasso (Queen's University)<br />
* Thomas Vaughan (Queen's University)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* The Guidelet base classes have been developed for IGT applications at the 2015 Summer Project Week by Andras Lasso and Laszlo Kanyasi. Since then, many applications were built using Guidelet to provide a full-screen, simplified GUI for IGT applications.<br />
* Review issues and requested features related in Guildelet-based applications<br />
* Provide developers' guide for those who wish to use Guidelet as a base for their applications.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Guidelet is part of the SlicerIGT extension, as a scripted (Python) module: https://github.com/SlicerIGT/SlicerIGT/tree/master/Guidelet<br />
* Guidelet users will meet several times during the week to discuss use cases and issues.<br />
* There will be a presentation about how to use Guidelets in the [http://www.na-mic.org/Wiki/index.php/2016_Summer_Project_Week/Workshop_on_Shared_Software_Platform_for_Ultrasound-Guided_Medical_Interventions Ultrasound breakout session]<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* <br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=File:LumpNav-Touchscreen.png&diff=93068File:LumpNav-Touchscreen.png2016-06-20T10:44:26Z<p>Ungi: Ungi uploaded a new version of File:LumpNav-Touchscreen.png</p>
<hr />
<div>Slicer used in breast surgery navigation. Slicer is shown on and controlled from a touchscreen (Microsoft Surface).</div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week&diff=930662016 Summer Project Week2016-06-20T10:38:52Z<p>Ungi: </p>
<hr />
<div>__NOTOC__<br />
<br />
[[image:PW-Summer2016.png|300px]]<br />
<br><br><br />
=Welcome to the web page for the 23rd Project Week!=<br />
The 23rd Project Week open source hackathon is being 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].<br />
<br />
='''Logistics'''=<br />
*'''Dates:''' Monday June 20th to Saturday June 25th, 2016, with one day break on Tuesday June 21st to attend IPCAI.<br />
*'''Location:''' Heidelberg, Germany.<br />
**'''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.<br />
**'''Monday''' at German Cancer Research Center - DKFZ<br />
*** 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.<br />
*** 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].<br />
**'''Tuesday''' there is '''no''' organized Project Week activity due to IPCAI @ CARS<br />
**'''Wednesday-Saturday''' at the Congress Hall of CARS.<br />
*'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html<br />
*'''Registration Fee:''' Euro 650 (after April 26, 2016)<br />
*'''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.<br />
*Preparatory Conference Calls: <br />
**800-501-8979. The pin is 7327389. ([http://www.windstreambusiness.com/resources/user-guides/international-conferencing International dialing instructions are available here])<br />
**Call #1 Tuesday, May 10, 3pm Boston time.<br />
**Call #2 Tuesday, May 17, 3pm Boston time.<br />
**Call #3 Tuesday, May 31, 9am Boston time.<br />
**Call #4 Tuesday, Jun 7, 9am Boston time.<br />
**Call #5 Tuesday, Jun 14, 9am Boston time.<br />
<br />
='''Agenda'''=<br />
<font color="maroon">Please note that on '''Tuesday''' there is no organized Project Week activity due to IPCAI @ CARS</font><br />
{|border="1"<br />
|-style="background:#b0d5e6;color:#02186f"<br />
!style="width:7%" |Time<br />
!style="width:15%" |Monday, June 20 <br> [https://goo.gl/maps/e3ZbcsM5KC82 DKFZ]<br />
!style="width:3%" |Tuesday, June 21 <br> IPCAI<br />
!style="width:15%" |Wednesday, June 22 <br> Congress Hall of CARS, Room Trübnersaal <br />
!style="width:15%" |Thursday, June 23 <br> Congress Hall of CARS, Room Trübnersaal <br />
!style="width:15%" |Friday, June 24 <br> Congress Hall of CARS, Room Trübnersaal <br />
!style="width:15%" |Saturday, June 25 <br> Congress Hall of CARS, Room Trübnersaal <br />
|-<br />
|bgcolor="#ffffdd"|'''9am-10am'''<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"; rowspan="8"|<br />
|bgcolor="#ffffff"|[[{{FULLPAGENAME}}/Workshop_on_Shared_Software_Platform_for_Ultrasound-Guided_Medical_Interventions|Workshop: Ultrasound-guided interventions software platform]]<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| Progress Review<br />
|-<br />
|bgcolor="#ffffdd"|'''10:00am-10:30am'''<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|-<br />
|bgcolor="#ffffdd"|'''10:30-12pm'''<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| Progress Review<br />
|-<br />
|bgcolor="#ffffdd"|'''12:00pm-1:00pm'''<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch and adjourn<br />
|-<br />
|bgcolor="#ffffdd"|'''1:00pm-3:00pm'''<br />
|bgcolor="#ffffff"| Welcome! <br> Project Introductions<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"; rowspan="4"|<br />
|-<br />
|bgcolor="#ffffdd"|'''3:00pm-3:30pm'''<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|-<br />
|bgcolor="#ffffdd"|'''3:30pm-5:00pm'''<br />
|bgcolor="#ffffff"| What does a Neurosurgeon need from technologists? (Alexandra Golby, MD) <br />
|bgcolor="#ffffff"| [[{{FULLPAGENAME}}/Breakout Session Slicer Extensions|Breakout Session: Slicer Extensions]] (JC, Steve)<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| <br />
|-<br />
|bgcolor="#ffffdd"|'''6:00pm'''<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| <br />
|-<br />
|}<br />
<br />
='''Background'''=<br />
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.<br />
<br />
[[Engineering:Programming_Events|Project Week]] is a semi-annual event which draws researchers from around the world and is led by [https://www.spl.harvard.edu/pages/People/tkapur Tina Kapur, PhD]. 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. <br />
<br />
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.<br />
<br />
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].<br />
<br />
An introduction and summary of all previous Project Events is available [[Project_Events|here]].<br />
<br />
This project week is an event [[Post-NCBC-2014|endorsed]] by the MICCAI society.<br />
<br />
The 23rd Project Week is being held in conjunction with the [http://www.cars-int.org/ 30th International Conference on Computer Assisted Radiology and Surgery] (CARS).<br />
<br />
Please make sure that you are on the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list].<br />
<br />
='''Equipment'''=<br />
*[[2016_Summer_Project_Week:Equipment|Specialized equipment people are going to bring]] (Please add to this list if you are bringing anything)<br />
*[[2016_Summer_Project_Week:Equipment_Requests|Specialized equipment that people would like to have]] '''Updated June 16 2016'''<br />
<br />
='''Projects'''=<br />
* Use this [[2016_Summer_Project_Week_Template | template]] for project pages<br />
<br />
=== IGT ===<br />
* [[2016 Summer Project Week/Guidelets | Guildelets (Slicelets for IGT)]] (Tamas Ungi, Andras Lasso, Thomas Vaughan)<br />
* [[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)<br />
* [[2016 Summer Project Week/Guided Ultrasound Calibration | Guided Ultrasound Calibration]] (Elvis Chen, Inês Prata, Tamas Ungi)<br />
* [[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)<br />
* [[2016 Summer Project Week/Slicelet For Ultrasound Acquisition | Slicelet for Ultrasound Acquisition]] (Sarah Frisken, Prashin Unadkat, Steve Pieper, Anna Roethe)<br />
* [[2016 Summer Project Week/Structural-functional measurements | Structural - Functional Relationship Measurements of Tractography Data with fMRI ]] (Lauren J. O'Donnell, Yannick Suter)<br />
* [[2016 Summer Project Week/SliceTracker | SliceTracker for Data Collection and Prostate Biopsy Support ]] (Christian Herz, Peter Behringer, Andrey Fedorov)<br />
* [[2016 Summer Project Week/Intra-procedural prostate motion characterization | Prostate Motion Characterization ]] (Peter Behringer, Christian Herz, Andrey Fedorov)<br />
* [[2016 Summer Project Week/Sacral Neuromodulation | Sacral Neuromodulation ]] (Rocío López, Javier Pascau, Tamas Ungi)<br />
* [[2016 Summer Project Week/Fusion of Electromagnetic and Surface Scanner Data | Fusion of Electromagnetic and Surface Scanner Data]] (Mónica García, Javier Pascau)<br />
* [[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)<br />
* [[2016 Summer Project Week/Needle Segmentation from MRI | Needle Segmentation from MRI]] (Guillaume Pernelle, Tina Kapur, Paolo Zaffino, Salvatore Scaramuzzino, Maria Francesca Spadea)<br />
* [[2016 Summer Project Week/Uncertainty-aware Information Fusion | Uncertainty-aware Information Fusion for Real-time Soft Tissue Motion Estimation]] (Bojan Kocev, Sarah Frisken, William Wells, Christian Hansen)<br />
* [[2016 Summer Project Week/Intraoperative Imaging workflow in Hybrid ORs | Intraoperative Imaging in Hybrid ORs]] (Sarah Frisken, Anna Roethe, Prashin Unadkat, Christian Hansen)<br />
* [[2016 Summer Project Week/Curve and Surface Creation from Fiducials]] (Thomas Vaughan)<br />
<br />
=== Infrastructure ===<br />
* [[2016 Summer Project Week/medical imaging webapp | Medical Imaging WebApp Software]] (Steve Pieper, Marco Nolden, Hans Meine)<br />
* [[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)<br />
* [[2016 Summer Project Week/Segmentations Integration | Integration of Segmentations Infrastructure and Related Modules to Slicer Core]] (Csaba Pinter, Andras Lasso)<br />
* [[2016 Summer Project Week/DICOM Tractography Results | Finalizing DICOM Tractography Results Implementation in DCMTK for BWH Project]] (Michael Onken)<br />
* [[2016 Summer Project Week/Feedback for Project Week | Measuring the Impact of Project Weeks]] (Tina Kapur)<br />
<br />
=== Augmented Reality ===<br />
* [[2016 Summer Project Week/OpenVR_integration | OpenVR Integration]] (Adam Rankin, Andras Lasso)<br />
* [[2016 Summer Project Week/VRPN Integration | VRPN Integration]] (Dženan Zukić)<br />
* [[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)<br />
* [[2016 Summer Project Week/Auditory Display | Auditory Display Integration]] (David Black, Sarah Frisken, Christian Hansen)<br />
<br />
=== Informatics ===<br />
* [[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)<br />
* [[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)<br />
* [[2016 Summer Project Week/MeVisLab SEG Colors | Support Reading and Writing DICOM Tags for SEG Colors]] (Hans Meine)<br />
* [[2016 Summer Project Week/Segmentation Editor and Terminology | Segmentation Editor and Terminology]] (Nicole Aucoin, Andrey Fedorov, Csaba Pinter, Andras Lasso)<br />
<br />
=== Atlas construction ===<br />
* [[2016 Summer Project Week/Histological Brain Atlas | Tool for the construction of an integrated brain atlas based on histology and MRI]] (Fernando Pérez García)<br />
<br />
<br />
=== Tutorial===<br />
* [[2016 Summer Project Week/SlicerDMRIDocumentation | Tutorials and Documentations in SlicerDMRI]] (Lauren J. O'Donnell, Fan Zhang, Isaiah Norton)<br />
* [[2016 Summer Project Week/CameraTutorial | How to use Basler Cameras for Medical Applications]] (Peter Behringer, Santhirarajah Mathimugan, Steve Pieper)<br />
* [[2016 Summer Project Week/UniversityCourse | Create the basics of a university course about medical image computing]] (Attila Nagy)<br />
<br />
= '''Registrants''' =<br />
<br />
'''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.<br />
<br />
# Tina Kapur, Brigham and Women's Hospital, Harvard Medical School (BWH/HMS), Boston, USA (Mon)<br />
# Ron Kikinis, Brigham and Women's Hospital, Harvard Medical School (BWH/HMS), Boston, USA and University of Bremen / Fraunhofer MEVIS, Germany (Mon)<br />
# Dženan Zukić, Kitware, USA<br />
# Ines Prata Machado, MIT Portugal Program (PhD Student), Lisbon, Portugal. (Mon)<br />
# Sonia Pujol, Brigham and Women's Hospital, Harvard Medical School (Mon)<br />
# Scheherazade Kraß, PhD Student, [http://www.uni-bremen.de/ University of Bremen], [http://www.mic.uni-bremen.de/ Medical Image Computing]group, Germany (Mon)<br />
# Maria Francesca Spadea [http://www.imagenglab.com ImagEngLab], Italy (Mon)<br />
# Paolo Zaffino [http://www.imagenglab.com ImagEngLab], Italy (Mon)<br />
# Salvatore Scaramuzzino [http://www.imagenglab.com ImagEngLab], Italy (Mon)<br />
# Steve Pieper, Isomics, Inc., USA (Mon)<br />
# Nicole Aucoin, Brigham and Women's Hospital (Mon)<br />
# Simon Drouin, Montreal Neurological Institute (Mon)<br />
# Thomas Kirchner, German Cancer Research Center (Mon)<br />
# Elvis Chen, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada (Mon)<br />
# Adam Rankin, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada (Mon)<br />
# Christian Askeland, SINTEF, Norway (Mon)<br />
# Hans Meine, University of Bremen / Fraunhofer MEVIS, Germany<br />
# Longquan Chen, BWH/HMS, Boston, USA (Mon)<br />
# Davide Punzo, Kapteyn Astronomical Institute, Netherlands (Mon)<br />
# Lauren O'Donnell, BWH/HMS<br />
# Yannick Suter, BWH/HMS (Mon)<br />
# Junichi Tokuda, BWH/HMS (Mon)<br />
# Sarah Frisken, BWH/HMS (Mon)<br />
# Prashin Unadkat, BWH/HMS<br />
# Anna Roethe, Charite, Berlin<br />
# Michael Onken, Open Connections, Germany (Mon)<br />
#Jan Schlamelcher, Open Connections/OFFIS, Germany<br />
# Janne Beate Bakeng, SINTEF, Norway<br />
# Ole Vegard Solberg, SINTEF, Norway<br />
# Jon Eiesland, SINTEF, Norway<br />
# Tamas Ungi, Queen's University, Canada (Mon)<br />
# Andras Lasso, Queen's University, Canada (Mon)<br />
# Csaba Pinter, Queen's University, Canada (Mon)<br />
# Thomas Vaughan, Queen's University, Canada (Mon)<br />
# Javier Pascau, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Verónica García-Vazquez, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Mónica García-Sevilla, Universidad Carlos III de Madrid, Spain (Mon)<br />
# David García-Mato, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Rocío López-Velazco, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Raúl San José, BWH/HMS, Boston<br />
# Pietro Nardeli, BWH/HMS, Boston<br />
# Andrey Fedorov, BWH/HMS, Boston (Mon, Wed, Thu)<br />
# Christian Herz, BWH/HMS, Boston (Mon)<br />
# Frank Lindseth, NTNU/SINTEF, Norway<br />
# Peter Behringer, Basler AG, Germany<br />
# Santhirarajah Mathimugan, Basler AG, Germany<br />
# Koji Kobayashi, Vocsis Corporation, Japan<br />
# David Black, University of Bremen / Fraunhofer MEVIS, Germany (Mon)<br />
#William Wells, BWH/HMS (Mon)<br />
# Attila Nagy, University of Szeged, Hungary (Mon)<br />
# Bojan Kocev, [http://www.uni-bremen.de/ University of Bremen], [http://www.mic.uni-bremen.de/ Medical Image Computing]group, Germany (Mon)<br />
# Sara Fernández Vidal, [http://icm-institute.org/en/ Institute of the Brain and Spine], France (Mon)<br />
# Fernando Pérez García, [http://icm-institute.org/en/ Institute of the Brain and Spine], France (Mon)<br />
# Marco Nolden, [http://mbi.dkfz-heidelberg.de Medical and Biological Informatics, German Cancer Research Center] (Mon)<br />
# Christian Hansen, [http://isgwww.cs.uni-magdeburg.de/cas/ University of Magdeburg], Germany (Mon)<br />
# Julian Hettig, [http://isgwww.cs.uni-magdeburg.de/cas/ University of Magdeburg], Germany <br />
<br />
'''Please don't forget to add yourself to the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list].'''</div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week/Guidelets&diff=930412016 Summer Project Week/Guidelets2016-06-20T09:42:03Z<p>Ungi: </p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2016.png|[[2016_Summer_Project_Week#Projects|Projects List]]<br />
Image:Guidelet-Lumpectomy.png|Guidelet-based user interface of an application for navigated surgery<br />
Image:Guidelet-NeedleTraining.png|Guidelet-based user interface of an application for ultrasound-guided needle intervention training<br />
</gallery><br />
<br />
==Key Investigators==<br />
* Tamas Ungi (Queen's University)<br />
* Andras Lasso (Queen's University)<br />
* Thomas Vaughan (Queen's University)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* The Guidelet base classes have been developed for IGT applications at the 2015 Summer Project Week by Andras Lasso and Laszlo Kanyasi. Since then, many applications were built using Guidelet to provide a full-screen, simplified GUI for IGT applications.<br />
* Review issues and requested features related in Guildelet-based applications<br />
* Provide developers' guide for those who wish to use Guidelet as a base for their applications.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Guidelet is part of the SlicerIGT extension, as a scripted (Python) module: https://github.com/SlicerIGT/SlicerIGT/tree/master/Guidelet<br />
* Guidelet users will meet several times during the week to discuss use cases and issues.<br />
* There will be a presentation about how to use Guidelets in the [http://www.na-mic.org/Wiki/index.php/2016_Summer_Project_Week/Workshop_on_Shared_Software_Platform_for_Ultrasound-Guided_Medical_Interventions Ultrasound breakout session]<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* <br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week/Guidelets&diff=930402016 Summer Project Week/Guidelets2016-06-20T09:41:45Z<p>Ungi: </p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2016.png|[[2016_Summer_Project_Week#Projects|Projects List]]<br />
Image:Guidelet-Lumpectomy.png|Guidelet-based user interface of an application for navigated surgery<br />
Image:Guidelet-NeedleTraining.png|Guidelet-based user interface of an application for ultrasound-guided needle intervention training<br />
</gallery><br />
<br />
==Key Investigators==<br />
* Tamas Ungi (Queen's University)<br />
* Andras Lasso (Queen's University)<br />
* Thomas Vaughan (Queen's University)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* The Guidelet base classes have been developed for IGT applications at the 2015 Summer Project Week by Andras Lasso and Laszlo Kanyasi. Since then, many applications were built using Guidelet to provide a full-screen, simplified GUI for IGT applications.<br />
* Review issues and requested features related in Guildelet-based applications<br />
* Provide developers' guide for those who wish to use Guidelet as a base for their applications.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Guidelet is part of the SlicerIGT extension, as a scripted (Python) module: https://github.com/SlicerIGT/SlicerIGT/tree/master/Guidelet<br />
* Guidelet users will meet several times during the week to discuss use cases and issues.<br />
* There will be a presentation about how to use Guidelets in the [http://www.na-mic.org/Wiki/index.php/2016_Summer_Project_Week/Workshop_on_Shared_Software_Platform_for_Ultrasound-Guided_Medical_Interventions | Ultrasound breakout session]<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* <br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week/Guidelets&diff=930392016 Summer Project Week/Guidelets2016-06-20T09:41:21Z<p>Ungi: </p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2016.png|[[2016_Summer_Project_Week#Projects|Projects List]]<br />
Image:Guidelet-Lumpectomy.png|Guidelet-based user interface of an application for navigated surgery<br />
Image:Guidelet-NeedleTraining.png|Guidelet-based user interface of an application for ultrasound-guided needle intervention training<br />
</gallery><br />
<br />
==Key Investigators==<br />
* Tamas Ungi (Queen's University)<br />
* Andras Lasso (Queen's University)<br />
* Thomas Vaughan (Queen's University)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* The Guidelet base classes have been developed for IGT applications at the 2015 Summer Project Week by Andras Lasso and Laszlo Kanyasi. Since then, many applications were built using Guidelet to provide a full-screen, simplified GUI for IGT applications.<br />
* Review issues and requested features related in Guildelet-based applications<br />
* Provide developers' guide for those who wish to use Guidelet as a base for their applications.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Guidelet is part of the SlicerIGT extension, as a scripted (Python) module: https://github.com/SlicerIGT/SlicerIGT/tree/master/Guidelet<br />
* Guidelet users will meet several times during the week to discuss use cases and issues.<br />
* There will be a presentation about how to use Guidelets in the [[http://www.na-mic.org/Wiki/index.php/2016_Summer_Project_Week/Workshop_on_Shared_Software_Platform_for_Ultrasound-Guided_Medical_Interventions | Ultrasound breakout session]]<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* <br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week/Guidelets&diff=930382016 Summer Project Week/Guidelets2016-06-20T09:40:41Z<p>Ungi: </p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2016.png|[[2016_Summer_Project_Week#Projects|Projects List]]<br />
Image:Guidelet-Lumpectomy.png|Guidelet-based user interface of an application for navigated surgery<br />
Image:Guidelet-NeedleTraining.png|Guidelet-based user interface of an application for ultrasound-guided needle intervention training<br />
</gallery><br />
<br />
==Key Investigators==<br />
* Tamas Ungi (Queen's University)<br />
* Andras Lasso (Queen's University)<br />
* Thomas Vaughan (Queen's University)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* The Guidelet base classes have been developed for IGT applications at the 2015 Summer Project Week by Andras Lasso and Laszlo Kanyasi. Since then, many applications were built using Guidelet to provide a full-screen, simplified GUI for IGT applications.<br />
* Review issues and requested features related in Guildelet-based applications<br />
* Provide developers' guide for those who wish to use Guidelet as a base for their applications.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Guidelet is part of the SlicerIGT extension, as a scripted (Python) module: https://github.com/SlicerIGT/SlicerIGT/tree/master/Guidelet<br />
* Guidelet users will meet several times during the week to discuss use cases and issues.<br />
* There will be a presentation about how to use Guidelets in the Ultrasound breakout session: http://www.na-mic.org/Wiki/index.php/2016_Summer_Project_Week/Workshop_on_Shared_Software_Platform_for_Ultrasound-Guided_Medical_Interventions<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* <br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week/Guidelets&diff=930352016 Summer Project Week/Guidelets2016-06-20T09:39:06Z<p>Ungi: </p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2016.png|[[2016_Summer_Project_Week#Projects|Projects List]]<br />
Image:Guidelet-Lumpectomy.png|Guidelet-based user interface of an application for navigated surgery<br />
Image:Guidelet-NeedleTraining.png|Guidelet-based user interface of an application for ultrasound-guided needle intervention training<br />
</gallery><br />
<br />
==Key Investigators==<br />
* Tamas Ungi (Queen's University)<br />
* Andras Lasso (Queen's University)<br />
* Thomas Vaughan (Queen's University)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* The Guidelet base classes have been developed for IGT applications at the 2015 Summer Project Week by Andras Lasso and Laszlo Kanyasi. Since then, many applications were built using Guidelet to provide a full-screen, simplified GUI for IGT applications.<br />
* Review issues and requested features related in Guildelet-based applications<br />
* Provide developers' guide for those who wish to use Guidelet as a base for their applications.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Guidelet is part of the SlicerIGT extension, as a scripted (Python) module: https://github.com/SlicerIGT/SlicerIGT/tree/master/Guidelet<br />
* Guidelet users will meet several times during the week to discuss use cases and issues.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* <br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week/Guidelets&diff=929602016 Summer Project Week/Guidelets2016-06-18T17:58:10Z<p>Ungi: </p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2016.png|[[2016_Summer_Project_Week#Projects|Projects List]]<br />
Image:Guidelet-Lumpectomy.png|Guidelet-based user interface of an application for navigated surgery<br />
Image:Guidelet-NeedleTraining.png|Guidelet-based user interface of an application for ultrasound-guided needle intervention training<br />
</gallery><br />
<br />
==Key Investigators==<br />
* Tamas Ungi (Queen's University)<br />
* Andras Lasso (Queen's University)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* The Guidelet base classes have been developed for IGT applications at the 2015 Summer Project Week by Andras Lasso and Laszlo Kanyasi. Since then, many applications were built using Guidelet to provide a full-screen, simplified GUI for IGT applications.<br />
* Review issues and requested features related in Guildelet-based applications<br />
* Provide developers' guide for those who wish to use Guidelet as a base for their applications.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Guidelet is part of the SlicerIGT extension, as a scripted (Python) module: https://github.com/SlicerIGT/SlicerIGT/tree/master/Guidelet<br />
* Guidelet users will meet several times during the week to discuss use cases and issues.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* <br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week/Guidelets&diff=929592016 Summer Project Week/Guidelets2016-06-18T17:54:05Z<p>Ungi: </p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2016.png|[[2016_Summer_Project_Week#Projects|Projects List]]<br />
Image:Guidelet-Lumpectomy.png|Guidelet-based user interface of an application for navigated surgery<br />
Image:Guidelet-NeedleTraining.png|Guidelet-based user interface of an application for ultrasound-guided needle intervention training<br />
</gallery><br />
<br />
==Key Investigators==<br />
* Tamas Ungi (Queen's University)<br />
* Andras Lasso (Queen's University)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* The Guidelet base classes have been developed for IGT applications at the 2015 Summer Project Week by Andras Lasso and Laszlo Kanyasi. Since then, many applications were built using Guidelet to provide a full-screen, simplified GUI for IGT applications.<br />
* Review issues and requested features related in Guildelet-based applications<br />
* Provide developers' guide for those who wish to use Guidelet as a base for their applications.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Guidelet is part of the SlicerIGT extension, as a scripted (Python) module.<br />
* Guidelet users will meet several times during the week to discuss use cases and issues.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* <br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=File:Guidelet-Lumpectomy.png&diff=92958File:Guidelet-Lumpectomy.png2016-06-18T17:50:36Z<p>Ungi: Guidelet-based user interface is used in breast cancer surgery. Guidelet is a module of the SlicerIGT extension that provides template for full screen customized user interfaces.</p>
<hr />
<div>Guidelet-based user interface is used in breast cancer surgery. Guidelet is a module of the SlicerIGT extension that provides template for full screen customized user interfaces.</div>Ungihttps://www.na-mic.org/w/index.php?title=File:Guidelet-NeedleTraining.png&diff=92957File:Guidelet-NeedleTraining.png2016-06-18T17:49:24Z<p>Ungi: Guildelet (user interface template of the SlicerIGT extension) is used in an application for ultrasound-guided needle interventions.</p>
<hr />
<div>Guildelet (user interface template of the SlicerIGT extension) is used in an application for ultrasound-guided needle interventions.</div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week&diff=929562016 Summer Project Week2016-06-18T17:40:36Z<p>Ungi: /* Registrants */</p>
<hr />
<div>__NOTOC__<br />
<br />
[[image:PW-Summer2016.png|300px]]<br />
<br><br><br />
=Welcome to the web page for the 23rd Project Week!=<br />
The 23rd Project Week open source hackathon is being 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].<br />
<br />
='''Logistics'''=<br />
*'''Dates:''' Monday June 20th to Saturday June 25th, 2016, with one day break on Tuesday June 21st to attend IPCAI.<br />
*'''Location:''' Heidelberg, Germany.<br />
**'''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.<br />
**'''Monday''' at German Cancer Research Center - DKFZ<br />
*** 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<br />
*** 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].<br />
**'''Tuesday''' there is '''no''' organized Project Week activity due to IPCAI @ CARS<br />
**'''Wednesday-Saturday''' at the Congress Hall of CARS.<br />
*'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html<br />
*'''Registration Fee:''' Euro 650 (after April 26, 2016)<br />
*'''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.<br />
*Preparatory Conference Calls: <br />
**800-501-8979. The pin is 7327389. ([http://www.windstreambusiness.com/resources/user-guides/international-conferencing International dialing instructions are available here])<br />
**Call #1 Tuesday, May 10, 3pm Boston time.<br />
**Call #2 Tuesday, May 17, 3pm Boston time.<br />
**Call #3 Tuesday, May 31, 9am Boston time.<br />
**Call #4 Tuesday, Jun 7, 9am Boston time.<br />
**Call #5 Tuesday, Jun 14, 9am Boston time.<br />
<br />
='''Agenda'''=<br />
<font color="maroon">Please note that on '''Tuesday''' there is no organized Project Week activity due to IPCAI @ CARS</font><br />
{|border="1"<br />
|-style="background:#b0d5e6;color:#02186f"<br />
!style="width:7%" |Time<br />
!style="width:15%" |Monday, June 20 <br> [https://goo.gl/maps/e3ZbcsM5KC82 DKFZ]<br />
!style="width:3%" |Tuesday, June 21 <br> IPCAI<br />
!style="width:15%" |Wednesday, June 22 <br> Congress Hall of CARS<br />
!style="width:15%" |Thursday, June 23 <br> Congress Hall of CARS<br />
!style="width:15%" |Friday, June 24 <br> Congress Hall of CARS<br />
!style="width:15%" |Saturday, June 25 <br> Congress Hall of CARS<br />
|-<br />
|bgcolor="#ffffdd"|'''9am-10am'''<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"; rowspan="8"|<br />
|bgcolor="#ffffff"|[[Breakout Session/Shared Software Platform for Ultrasound-Guided Medical Interventions]] (Andras Lasso)<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| Progress Review<br />
|-<br />
|bgcolor="#ffffdd"|'''10:00am-10:30am'''<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|-<br />
|bgcolor="#ffffdd"|'''10:30-12pm'''<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| Progress Review<br />
|-<br />
|bgcolor="#ffffdd"|'''12:00pm-1:00pm'''<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch and adjourn<br />
|-<br />
|bgcolor="#ffffdd"|'''1:00pm-3:00pm'''<br />
|bgcolor="#ffffff"| Welcome! <br> Project Introductions<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"; rowspan="4"|<br />
|-<br />
|bgcolor="#ffffdd"|'''3:00pm-3:30pm'''<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|-<br />
|bgcolor="#ffffdd"|'''3:30pm-5:00pm'''<br />
|bgcolor="#ffffff"| What does a Neurosurgeon need from technologists? (Alexandra Golby, MD) <br />
|bgcolor="#ffffff"| [[Breakout Session/Slicer Extensions]]<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| <br />
|-<br />
|bgcolor="#ffffdd"|'''6:00pm'''<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| <br />
|-<br />
|}<br />
<br />
='''Background'''=<br />
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.<br />
<br />
[[Engineering:Programming_Events|Project Week]] is a semi-annual event which draws researchers from around the world and is led by [https://www.spl.harvard.edu/pages/People/tkapur Tina Kapur, PhD]. 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. <br />
<br />
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.<br />
<br />
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].<br />
<br />
An introduction and summary of all previous Project Events is available [[Project_Events|here]].<br />
<br />
This project week is an event [[Post-NCBC-2014|endorsed]] by the MICCAI society.<br />
<br />
The 23rd Project Week is being held in conjunction with the [http://www.cars-int.org/ 30th International Conference on Computer Assisted Radiology and Surgery] (CARS).<br />
<br />
Please make sure that you are on the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list].<br />
<br />
='''Equipment'''=<br />
*[[2016_Summer_Project_Week:Equipment|Specialized equipment people are going to bring]] (Please add to this list if you are bringing anything)<br />
*[[2016_Summer_Project_Week:Equipment_Requests|Specialized equipment that people would like to have]] '''Updated June 16 2016'''<br />
<br />
='''Projects'''=<br />
* Use this [[2016_Summer_Project_Week_Template | template]] for project pages<br />
<br />
=== IGT ===<br />
* [[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)<br />
* [[2016 Summer Project Week/Needle Segmentation from MRI | Needle Segmentation from MRI]] (Guillaume Pernelle, Andre Mastmeyer, Tina Kapur, Paolo Zaffino)<br />
* [[2016 Summer Project Week/Guided Ultrasound Calibration | Guided Ultrasound Calibration]] (Elvis Chen, Inês Prata, Tamas Ungi)<br />
* [[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)<br />
* [[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)<br />
* [[2016 Summer Project Week/SliceTracker | SliceTracker for Data Collection and Prostate Biopsy Support ]] (Christian Herz, Peter Behringer, Andrey Fedorov)<br />
* [[2016 Summer Project Week/Sacral Neuromodulation | Sacral Neuromodulation ]] (Javier Pascau, Rocío López, Tamas Ungi)<br />
* [[2016 Summer Project Week/Intra-procedural prostate motion characterization | Prostate Motion Characterization ]] (Peter Behringer, Christian Herz, Andrey Fedorov)<br />
* [[2016 Summer Project Week/Structural-functional measurements | Structural - Functional Relationship Measurements of Tractography Data with fMRI ]] (Lauren J. O'Donnell, Yannick Suter)<br />
* [[2016 Summer Project Week/Uncertainty-aware Information Fusion | Uncertainty-aware Information Fusion for Real-time Soft Tissue Motion Estimation]] (Bojan Kocev, Sarah Frisken, William Wells)<br />
* [[2016 Summer Project Week/Slicelet For Ultrasound Acquisition | Slicelet for Ultrasound Acquisition]] (Sarah Frisken, Prashin Unadkat, Steve Pieper)<br />
* [[2016 Summer Project Week/Fusion of Electromagnetic and Surface Scanner Data | Fusion of Electromagnetic and Surface Scanner Data]] (Javier Pascau, Mónica García)<br />
* [[2016 Summer Project Week/Guidelets | Guildelets (Slicelets for IGT)]] (Tamas Ungi, Andras Lasso)<br />
<br />
=== Infrastructure ===<br />
* [[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)<br />
* [[2016 Summer Project Week/Segmentations Integration | Integration of Segmentations Infrastructure and Related Modules to Slicer Core]] (Csaba Pinter, Andras Lasso)<br />
* [[2016 Summer Project Week/DICOM Tractography Results | Finalizing DICOM Tractography Results Implementation in DCMTK for BWH Project]] (Michael Onken)<br />
<br />
=== Augmented Reality ===<br />
* [[2016 Summer Project Week/VRPN Integration | VRPN Integration]] (Dženan Zukić)<br />
* [[2016 Summer Project Week/OpenVR_integration | OpenVR Integration]] (Adam Rankin)<br />
* [[2016 Summer Project Week/AR with a tablet device in the surgical room | AR with a Tablet Device in the Surgical Room]] (Javier Pascau, David García)<br />
<br />
=== Cloud ===<br />
* [[2016 Summer Project Week/medical imaging webapp | Medical Imaging WebApp Software]] (Steve Pieper, Marco Nolden, Hans Meine)<br />
<br />
=== Atlas construction ===<br />
* [[2016 Summer Project Week/Histological Brain Atlas | Tool for the construction of an integrated brain atlas based on histology and MRI]] (Fernando Pérez García)<br />
<br />
=== Informatics ===<br />
* [[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)<br />
* [[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)<br />
* [[2016 Summer Project Week/MeVisLab SEG Colors | Support Reading and Writing DICOM Tags for SEG Colors]] (Hans Meine)<br />
* [[2016 Summer Project Week/Segmentation Editor and Terminology | Segmentation Editor and Terminology]] (Nicole Aucoin, Andrey Fedorov, Csaba Pinter)<br />
<br />
=== Tutorial===<br />
* [[2016 Summer Project Week/CameraTutorial | How to use Basler Cameras for Medical Applications]] (Peter Behringer, Santhirarajah Mathimugan, Steve Pieper)<br />
* [[2016 Summer Project Week/SlicerDMRIDocumentation | Tutorials and Documentations in SlicerDMRI]] (Lauren J. O'Donnell, Fan Zhang, Isaiah Norton)<br />
* [[2016 Summer Project Week/UniversityCourse | Create the basics of a university course about medical image computing]] (Attila Nagy)<br />
<br />
= '''Registrants''' =<br />
<br />
'''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.<br />
<br />
# Tina Kapur, Brigham and Women's Hospital, Harvard Medical School (BWH/HMS), Boston, USA (Mon)<br />
# Ron Kikinis, Brigham and Women's Hospital, Harvard Medical School (BWH/HMS), Boston, USA and University of Bremen / Fraunhofer MEVIS, Germany (Mon)<br />
# Dženan Zukić, Kitware, USA<br />
# Ines Prata Machado, MIT Portugal Program (PhD Student), Lisbon, Portugal. (Mon)<br />
# Sonia Pujol, Brigham and Women's Hospital, Harvard Medical School (Mon)<br />
# Scheherazade Kraß, PhD Student, [http://www.uni-bremen.de/ University of Bremen], [http://www.mic.uni-bremen.de/ Medical Image Computing]group, Germany (Mon)<br />
# Maria Francesca Spadea [http://www.imagenglab.com ImagEngLab], Italy (Mon)<br />
# Paolo Zaffino [http://www.imagenglab.com ImagEngLab], Italy (Mon)<br />
# Salvatore Scaramuzzino [http://www.imagenglab.com ImagEngLab], Italy (Mon)<br />
# Steve Pieper, Isomics, Inc., USA (Mon)<br />
# Nicole Aucoin, Brigham and Women's Hospital (Mon)<br />
# Simon Drouin, Montreal Neurological Institute (Mon)<br />
# Thomas Kirchner, German Cancer Research Center (Mon)<br />
# Elvis Chen, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada (Mon)<br />
# Adam Rankin, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada (Mon)<br />
# Christian Askeland, SINTEF, Norway (Mon)<br />
# Hans Meine, University of Bremen / Fraunhofer MEVIS, Germany<br />
# Longquan Chen, BWH/HMS, Boston, USA (Mon)<br />
# Davide Punzo, Kapteyn Astronomical Institute, Netherlands (Mon)<br />
# Lauren O'Donnell, BWH/HMS<br />
# Yannick Suter, BWH/HMS (Mon)<br />
# Junichi Tokuda, BWH/HMS (Mon)<br />
# Sarah Frisken, BWH/HMS (Mon)<br />
# Prashin Unadkat, BWH/HMS<br />
# Anna Roethe, Charite, Berlin<br />
# Michael Onken, Open Connections, Germany (Mon)<br />
#Jan Schlamelcher, Open Connections/OFFIS, Germany<br />
# Janne Beate Bakeng, SINTEF, Norway<br />
# Ole Vegard Solberg, SINTEF, Norway<br />
# Jon Eiesland, SINTEF, Norway<br />
# Tamas Ungi, Queen's University, Canada (Mon)<br />
# Andras Lasso, Queen's University, Canada (Mon)<br />
# Csaba Pinter, Queen's University, Canada (Mon)<br />
# Thomas Vaughan, Queen's University, Canada (Mon)<br />
# Javier Pascau, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Verónica García-Vazquez, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Mónica García-Sevilla, Universidad Carlos III de Madrid, Spain (Mon)<br />
# David García-Mato, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Rocío López-Velazco, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Raúl San José, BWH/HMS, Boston<br />
# Pietro Nardeli, BWH/HMS, Boston<br />
# Andrey Fedorov, BWH/HMS, Boston (Mon, Wed, Thu)<br />
# Christian Herz, BWH/HMS, Boston (Mon)<br />
# Frank Lindseth, NTNU/SINTEF, Norway<br />
# Peter Behringer, Basler AG, Germany<br />
# Santhirarajah Mathimugan, Basler AG, Germany<br />
# Koji Kobayashi, Vocsis Corporation, Japan<br />
# David Black, University of Bremen / Fraunhofer MEVIS, Germany (Mon)<br />
#William Wells, BWH/HMS (Mon)<br />
# Attila Nagy, University of Szeged, Hungary (Mon)<br />
# Bojan Kocev, [http://www.uni-bremen.de/ University of Bremen], [http://www.mic.uni-bremen.de/ Medical Image Computing]group, Germany (Mon)<br />
# Sara Fernández Vidal, [http://icm-institute.org/en/ Institute of the Brain and Spine], France (Mon)<br />
# Fernando Pérez García, [http://icm-institute.org/en/ Institute of the Brain and Spine], France (Mon)<br />
# Marco Nolden, [http://mbi.dkfz-heidelberg.de Medical and Biological Informatics, German Cancer Research Center] (Mon)<br />
# Christian Hansen, [http://isgwww.cs.uni-magdeburg.de/cas/ University of Magdeburg], Germany (Mon)<br />
# Julian Hettig, [http://isgwww.cs.uni-magdeburg.de/cas/ University of Magdeburg], Germany <br />
<br />
'''Please don't forget to add yourself to the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list].'''</div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week/Guidelets&diff=929552016 Summer Project Week/Guidelets2016-06-18T17:35:54Z<p>Ungi: Created page with "__NOTOC__ <gallery> Image:PW-Summer2016.png|Projects List </gallery> ==Key Investigators== * Tamas Ungi (Queen's University) * Andras La..."</p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2016.png|[[2016_Summer_Project_Week#Projects|Projects List]]<br />
</gallery><br />
<br />
==Key Investigators==<br />
* Tamas Ungi (Queen's University)<br />
* Andras Lasso (Queen's University)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* The Guidelet base classes have been developed for IGT applications at the 2015 Summer Project Week by Andras Lasso and Laszlo Kanyasi. Since then, many applications were built using Guidelet to provide a full-screen, simplified GUI for IGT applications.<br />
* Review issues and requested features related in Guildelet-based applications<br />
* Provide developers' guide for those who wish to use Guidelet as a base for their applications.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Guidelet is part of the SlicerIGT extension, as a scripted (Python) module.<br />
* Guidelet users will meet several times during the week to discuss use cases and issues.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* <br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week&diff=929542016 Summer Project Week2016-06-18T17:30:52Z<p>Ungi: </p>
<hr />
<div>__NOTOC__<br />
<br />
[[image:PW-Summer2016.png|300px]]<br />
<br><br><br />
=Welcome to the web page for the 23rd Project Week!=<br />
The 23rd Project Week open source hackathon is being 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].<br />
<br />
='''Logistics'''=<br />
*'''Dates:''' Monday June 20th to Saturday June 25th, 2016, with one day break on Tuesday June 21st to attend IPCAI.<br />
*'''Location:''' Heidelberg, Germany.<br />
**'''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.<br />
**'''Monday''' at German Cancer Research Center - DKFZ<br />
*** 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<br />
*** 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].<br />
**'''Tuesday''' there is '''no''' organized Project Week activity due to IPCAI @ CARS<br />
**'''Wednesday-Saturday''' at the Congress Hall of CARS.<br />
*'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html<br />
*'''Registration Fee:''' Euro 650 (after April 26, 2016)<br />
*'''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.<br />
*Preparatory Conference Calls: <br />
**800-501-8979. The pin is 7327389. ([http://www.windstreambusiness.com/resources/user-guides/international-conferencing International dialing instructions are available here])<br />
**Call #1 Tuesday, May 10, 3pm Boston time.<br />
**Call #2 Tuesday, May 17, 3pm Boston time.<br />
**Call #3 Tuesday, May 31, 9am Boston time.<br />
**Call #4 Tuesday, Jun 7, 9am Boston time.<br />
**Call #5 Tuesday, Jun 14, 9am Boston time.<br />
<br />
='''Agenda'''=<br />
<font color="maroon">Please note that on '''Tuesday''' there is no organized Project Week activity due to IPCAI @ CARS</font><br />
{|border="1"<br />
|-style="background:#b0d5e6;color:#02186f"<br />
!style="width:7%" |Time<br />
!style="width:15%" |Monday, June 20 <br> [https://goo.gl/maps/e3ZbcsM5KC82 DKFZ]<br />
!style="width:3%" |Tuesday, June 21 <br> IPCAI<br />
!style="width:15%" |Wednesday, June 22 <br> Congress Hall of CARS<br />
!style="width:15%" |Thursday, June 23 <br> Congress Hall of CARS<br />
!style="width:15%" |Friday, June 24 <br> Congress Hall of CARS<br />
!style="width:15%" |Saturday, June 25 <br> Congress Hall of CARS<br />
|-<br />
|bgcolor="#ffffdd"|'''9am-10am'''<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"; rowspan="8"|<br />
|bgcolor="#ffffff"|[[Breakout Session/Shared Software Platform for Ultrasound-Guided Medical Interventions]] (Andras Lasso)<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| Progress Review<br />
|-<br />
|bgcolor="#ffffdd"|'''10:00am-10:30am'''<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|-<br />
|bgcolor="#ffffdd"|'''10:30-12pm'''<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| Progress Review<br />
|-<br />
|bgcolor="#ffffdd"|'''12:00pm-1:00pm'''<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch and adjourn<br />
|-<br />
|bgcolor="#ffffdd"|'''1:00pm-3:00pm'''<br />
|bgcolor="#ffffff"| Welcome! <br> Project Introductions<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"; rowspan="4"|<br />
|-<br />
|bgcolor="#ffffdd"|'''3:00pm-3:30pm'''<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|bgcolor="#f0e68b"| Coffee Break<br />
|-<br />
|bgcolor="#ffffdd"|'''3:30pm-5:00pm'''<br />
|bgcolor="#ffffff"| What does a Neurosurgeon need from technologists? (Alexandra Golby, MD) <br />
|bgcolor="#ffffff"| [[Breakout Session/Slicer Extensions]]<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| <br />
|-<br />
|bgcolor="#ffffdd"|'''6:00pm'''<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"| <br />
|-<br />
|}<br />
<br />
='''Background'''=<br />
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.<br />
<br />
[[Engineering:Programming_Events|Project Week]] is a semi-annual event which draws researchers from around the world and is led by [https://www.spl.harvard.edu/pages/People/tkapur Tina Kapur, PhD]. 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. <br />
<br />
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.<br />
<br />
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].<br />
<br />
An introduction and summary of all previous Project Events is available [[Project_Events|here]].<br />
<br />
This project week is an event [[Post-NCBC-2014|endorsed]] by the MICCAI society.<br />
<br />
The 23rd Project Week is being held in conjunction with the [http://www.cars-int.org/ 30th International Conference on Computer Assisted Radiology and Surgery] (CARS).<br />
<br />
Please make sure that you are on the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list].<br />
<br />
='''Equipment'''=<br />
*[[2016_Summer_Project_Week:Equipment|Specialized equipment people are going to bring]] (Please add to this list if you are bringing anything)<br />
*[[2016_Summer_Project_Week:Equipment_Requests|Specialized equipment that people would like to have]] '''Updated June 16 2016'''<br />
<br />
='''Projects'''=<br />
* Use this [[2016_Summer_Project_Week_Template | template]] for project pages<br />
<br />
=== IGT ===<br />
* [[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)<br />
* [[2016 Summer Project Week/Needle Segmentation from MRI | Needle Segmentation from MRI]] (Guillaume Pernelle, Andre Mastmeyer, Tina Kapur, Paolo Zaffino)<br />
* [[2016 Summer Project Week/Guided Ultrasound Calibration | Guided Ultrasound Calibration]] (Elvis Chen, Inês Prata, Tamas Ungi)<br />
* [[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)<br />
* [[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)<br />
* [[2016 Summer Project Week/SliceTracker | SliceTracker for Data Collection and Prostate Biopsy Support ]] (Christian Herz, Peter Behringer, Andrey Fedorov)<br />
* [[2016 Summer Project Week/Sacral Neuromodulation | Sacral Neuromodulation ]] (Javier Pascau, Rocío López, Tamas Ungi)<br />
* [[2016 Summer Project Week/Intra-procedural prostate motion characterization | Prostate Motion Characterization ]] (Peter Behringer, Christian Herz, Andrey Fedorov)<br />
* [[2016 Summer Project Week/Structural-functional measurements | Structural - Functional Relationship Measurements of Tractography Data with fMRI ]] (Lauren J. O'Donnell, Yannick Suter)<br />
* [[2016 Summer Project Week/Uncertainty-aware Information Fusion | Uncertainty-aware Information Fusion for Real-time Soft Tissue Motion Estimation]] (Bojan Kocev, Sarah Frisken, William Wells)<br />
* [[2016 Summer Project Week/Slicelet For Ultrasound Acquisition | Slicelet for Ultrasound Acquisition]] (Sarah Frisken, Prashin Unadkat, Steve Pieper)<br />
* [[2016 Summer Project Week/Fusion of Electromagnetic and Surface Scanner Data | Fusion of Electromagnetic and Surface Scanner Data]] (Javier Pascau, Mónica García)<br />
* [[2016 Summer Project Week/Guidelets | Guildelets (Slicelets for IGT)]] (Tamas Ungi, Andras Lasso)<br />
<br />
=== Infrastructure ===<br />
* [[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)<br />
* [[2016 Summer Project Week/Segmentations Integration | Integration of Segmentations Infrastructure and Related Modules to Slicer Core]] (Csaba Pinter, Andras Lasso)<br />
* [[2016 Summer Project Week/DICOM Tractography Results | Finalizing DICOM Tractography Results Implementation in DCMTK for BWH Project]] (Michael Onken)<br />
<br />
=== Augmented Reality ===<br />
* [[2016 Summer Project Week/VRPN Integration | VRPN Integration]] (Dženan Zukić)<br />
* [[2016 Summer Project Week/OpenVR_integration | OpenVR Integration]] (Adam Rankin)<br />
* [[2016 Summer Project Week/AR with a tablet device in the surgical room | AR with a Tablet Device in the Surgical Room]] (Javier Pascau, David García)<br />
<br />
=== Cloud ===<br />
* [[2016 Summer Project Week/medical imaging webapp | Medical Imaging WebApp Software]] (Steve Pieper, Marco Nolden, Hans Meine)<br />
<br />
=== Atlas construction ===<br />
* [[2016 Summer Project Week/Histological Brain Atlas | Tool for the construction of an integrated brain atlas based on histology and MRI]] (Fernando Pérez García)<br />
<br />
=== Informatics ===<br />
* [[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)<br />
* [[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)<br />
* [[2016 Summer Project Week/MeVisLab SEG Colors | Support Reading and Writing DICOM Tags for SEG Colors]] (Hans Meine)<br />
* [[2016 Summer Project Week/Segmentation Editor and Terminology | Segmentation Editor and Terminology]] (Nicole Aucoin, Andrey Fedorov, Csaba Pinter)<br />
<br />
=== Tutorial===<br />
* [[2016 Summer Project Week/CameraTutorial | How to use Basler Cameras for Medical Applications]] (Peter Behringer, Santhirarajah Mathimugan, Steve Pieper)<br />
* [[2016 Summer Project Week/SlicerDMRIDocumentation | Tutorials and Documentations in SlicerDMRI]] (Lauren J. O'Donnell, Fan Zhang, Isaiah Norton)<br />
* [[2016 Summer Project Week/UniversityCourse | Create the basics of a university course about medical image computing]] (Attila Nagy)<br />
<br />
= '''Registrants''' =<br />
<br />
'''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.<br />
<br />
# Tina Kapur, Brigham and Women's Hospital, Harvard Medical School (BWH/HMS), Boston, USA (Mon)<br />
# Ron Kikinis, Brigham and Women's Hospital, Harvard Medical School (BWH/HMS), Boston, USA and University of Bremen / Fraunhofer MEVIS, Germany (Mon)<br />
# Dženan Zukić, Kitware, USA<br />
# Ines Prata Machado, MIT Portugal Program (PhD Student), Lisbon, Portugal. (Mon)<br />
# Sonia Pujol, Brigham and Women's Hospital, Harvard Medical School (Mon)<br />
# Scheherazade Kraß, PhD Student, [http://www.uni-bremen.de/ University of Bremen], [http://www.mic.uni-bremen.de/ Medical Image Computing]group, Germany (Mon)<br />
# Maria Francesca Spadea [http://www.imagenglab.com ImagEngLab], Italy (Mon)<br />
# Paolo Zaffino [http://www.imagenglab.com ImagEngLab], Italy (Mon)<br />
# Salvatore Scaramuzzino [http://www.imagenglab.com ImagEngLab], Italy (Mon)<br />
# Steve Pieper, Isomics, Inc., USA (Mon)<br />
# Nicole Aucoin, Brigham and Women's Hospital (Mon)<br />
# Simon Drouin, Montreal Neurological Institute (Mon)<br />
# Thomas Kirchner, German Cancer Research Center (Mon)<br />
# Elvis Chen, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada (Mon)<br />
# Adam Rankin, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada (Mon)<br />
# Christian Askeland, SINTEF, Norway (Mon)<br />
# Hans Meine, University of Bremen / Fraunhofer MEVIS, Germany<br />
# Longquan Chen, BWH/HMS, Boston, USA (Mon)<br />
# Davide Punzo, Kapteyn Astronomical Institute, Netherlands (Mon)<br />
# Lauren O'Donnell, BWH/HMS<br />
# Yannick Suter, BWH/HMS (Mon)<br />
# Junichi Tokuda, BWH/HMS (Mon)<br />
# Sarah Frisken, BWH/HMS (Mon)<br />
# Prashin Unadkat, BWH/HMS<br />
# Anna Roethe, Charite, Berlin<br />
# Michael Onken, Open Connections, Germany (Mon)<br />
#Jan Schlamelcher, Open Connections/OFFIS, Germany<br />
# Janne Beate Bakeng, SINTEF, Norway<br />
# Ole Vegard Solberg, SINTEF, Norway<br />
# Jon Eiesland, SINTEF, Norway<br />
# Tamas Ungi, Queen's University, Canada (Mon)<br />
# Andras Lasso, Queen's University, Canada (Mon)<br />
# Csaba Pinter, Queen's University, Canada (Mon)<br />
# Thomas Vaughan, Queen's University, Canada (Mon)<br />
#Gabor Fichtinger, Queen's University, Canada<br />
# Javier Pascau, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Verónica García-Vazquez, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Mónica García-Sevilla, Universidad Carlos III de Madrid, Spain (Mon)<br />
# David García-Mato, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Rocío López-Velazco, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Raúl San José, BWH/HMS, Boston<br />
# Pietro Nardeli, BWH/HMS, Boston<br />
# Andrey Fedorov, BWH/HMS, Boston (Mon, Wed, Thu)<br />
# Christian Herz, BWH/HMS, Boston (Mon)<br />
# Frank Lindseth, NTNU/SINTEF, Norway<br />
# Peter Behringer, Basler AG, Germany<br />
# Santhirarajah Mathimugan, Basler AG, Germany<br />
# Koji Kobayashi, Vocsis Corporation, Japan<br />
# David Black, University of Bremen / Fraunhofer MEVIS, Germany (Mon)<br />
#William Wells, BWH/HMS (Mon)<br />
# Attila Nagy, University of Szeged, Hungary (Mon)<br />
# Bojan Kocev, [http://www.uni-bremen.de/ University of Bremen], [http://www.mic.uni-bremen.de/ Medical Image Computing]group, Germany (Mon)<br />
# Sara Fernández Vidal, [http://icm-institute.org/en/ Institute of the Brain and Spine], France (Mon)<br />
# Fernando Pérez García, [http://icm-institute.org/en/ Institute of the Brain and Spine], France (Mon)<br />
# Marco Nolden, [http://mbi.dkfz-heidelberg.de Medical and Biological Informatics, German Cancer Research Center] (Mon)<br />
# Christian Hansen, [http://isgwww.cs.uni-magdeburg.de/cas/ University of Magdeburg], Germany (Mon)<br />
# Julian Hettig, [http://isgwww.cs.uni-magdeburg.de/cas/ University of Magdeburg], Germany <br />
<br />
'''Please don't forget to add yourself to the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list].'''</div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week/Guided_Ultrasound_Calibration&diff=926812016 Summer Project Week/Guided Ultrasound Calibration2016-05-31T13:53:41Z<p>Ungi: /* Key Investigators */</p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2016.png|[[2016_Summer_Project_Week#Projects|Projects List]]<br />
</gallery><br />
<br />
==Key Investigators==<br />
* Elvis Chen (Robarts Research Institute)<br />
* Adam Rankin (Robarts Research Institute)<br />
* Tamas Ungi (Queen's University)<br />
<br />
==Background==<br />
<br />
Ultrasound probe calibration is an active area of research, with many calibration phantoms and numerical algorithms available in the current literature. In the upcoming IPCAI (2016) conference, we present the first ultrasound calibration framework that provides real-time Target Registration Error (TRE) feedback. That is, between successive measurement, our framework suggests the end-user where and how in the US image to collect next phantom measurement so that the TRE is maximally minimized. Refer to the following paper for a detailed description:<br />
<br />
* IJCARS Paper: http://link.springer.com/article/10.1007/s11548-016-1390-7<br />
<br />
Both theoretical experimental results suggest that sub-millimetre TRE can be achieved with 12 measurements.<br />
<br />
The TRE prediction is based on spatial stiffnessm model.<br />
<br />
The US calibration is modeled as point-line registration.<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* A slicer module/GUI for US calibration<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Use PLUS library for data (US image and tracker transforms) acquisition<br />
* port existing C++/VTK code into the slicer environment<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* Slicer development has been properly set up.<br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week&diff=926802016 Summer Project Week2016-05-31T13:52:44Z<p>Ungi: /* IGT */</p>
<hr />
<div>__NOTOC__<br />
<br />
[[image:PW-Summer2016.png|300px]]<br />
<br><br><br />
=Welcome to the web page for the 23rd Project Week!=<br />
The 23rd Project Week open source hackathon is being 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].<br />
<br />
='''Logistics'''=<br />
*'''Dates:''' Monday June 20th to Saturday June 25th, 2016, with one day break on Tuesday June 21st to attend IPCAI.<br />
*'''Location:''' Heidelberg, Germany.<br />
**'''Monday''' at German Cancer Research Center - DKFZ<br />
**'''Tuesday''' there is '''no''' organized Project Week activity due to IPCAI @ CARS<br />
**'''Wednesday-Saturday''' at the Congress Hall of CARS.<br />
*'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html<br />
*'''Registration Fee:''' Euro 650 (after April 26, 2016)<br />
*'''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.<br />
*Preparatory Conference Calls: <br />
**800-501-8979. The pin is 7327389. ([http://www.windstreambusiness.com/resources/user-guides/international-conferencing International dialing instructions are available here])<br />
**Call #1 Tuesday, May 10, 3pm Boston time.<br />
**Call #2 Tuesday, May 17, 3pm Boston time.<br />
**Call #3 Tuesday, May 31, 9am Boston time.<br />
**Call #4 Tuesday, Jun 7, 9am Boston time.<br />
**Call #5 Tuesday, Jun 14, 9am Boston time.<br />
<br />
='''Agenda'''=<br />
<font color="maroon">Please note that on '''Tuesday''' there is no organized Project Week activity due to IPCAI @ CARS</font><br />
{|border="1"<br />
|-style="background:#b0d5e6;color:#02186f"<br />
!style="width:7%" |Time<br />
!style="width:15%" |Monday, June 20 <br> DKFZ <br />
!style="width:3%" |Tuesday, June 21 <br> IPCAI<br />
!style="width:15%" |Wednesday, June 22 <br> Congress Hall of CARS<br />
!style="width:15%" |Thursday, June 23 <br> Congress Hall of CARS<br />
!style="width:15%" |Friday, June 24 <br> Congress Hall of CARS<br />
!style="width:15%" |Saturday, June 25 <br> Congress Hall of CARS<br />
|-<br />
|bgcolor="#ffffdd"|'''9:00am-12:00pm'''<br />
|bgcolor="#ffffff"| DKFZ Discussions<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|Breakout Session: Ultrasound Navigation<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| Progress Review<br />
|-<br />
|bgcolor="#ffffdd"|'''12:00pm-1:00pm'''<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch and adjourn<br />
|-<br />
|bgcolor="#ffffdd"|'''1:00pm-3:00pm'''<br />
|bgcolor="#ffffff"| Welcome! <br> Project Introductions<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|-<br />
|bgcolor="#ffffdd"|'''3:00pm-5:00pm'''<br />
|bgcolor="#ffffff"| 3:30pm: Breakout Session: Slicer Extensions<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|-<br />
|bgcolor="#ffffdd"|'''6:00pm'''<br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"| <br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"|<br />
|-<br />
|}<br />
<br />
='''Background'''=<br />
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.<br />
<br />
[[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. <br />
<br />
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.<br />
<br />
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].<br />
<br />
A summary of all previous Project Events is available [[Project_Events#Past|here]].<br />
<br />
This project week is an event [[Post-NCBC-2014|endorsed]] by the MICCAI society.<br />
<br />
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).<br />
<br />
Please make sure that you are on the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list].<br />
<br />
<br />
='''Equipment'''=<br />
*[[2016_Summer_Project_Week:Equipment|Specialized equipment people are going to bring]] (Please add to this list if you are bringing anything)<br />
*[[2016_Summer_Project_Week:Equipment_Requests|Specialized equipment that people would like to have]]<br />
<br />
='''Projects'''=<br />
* Use this [[2016_Summer_Project_Week_Template | template]] for project pages<br />
<br />
=== IGT ===<br />
* [[2016 Summer Project Week/OpenIGTLink Robotics | Integrating/Using OpenIGTLink for the communications of Robotics devices]] (Scheherazade Kraß, Longquan Chen)<br />
* [[2016 Summer Project Week/Needle Segmentation from MRI | Needle Segmentation from MRI]] (Tina Kapur, Andre Mastmeyer, Guillaume Pernelle)<br />
* [[2016 Summer Project Week/Guided Ultrasound Calibration | Guided Ultrasound Calibration]] (Elvis Chen, Inês Prata ines7_prata@hotmail.com, Tamas Ungi)<br />
* [[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)<br />
* [[2016 Summer Project Week/PLUS integration in CustusX via OpenIGTLink | PLUS integration in CustusX via OpenIGTLink]] (Christian Askeland, Janne Beate Bakeng, Ole Vegard Solberg, Jon Eiesland, Longquan Chen)<br />
<br />
=== Infrastructure ===<br />
* [[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?)<br />
* [[2016 Summer Project Week/Segmentation Editor and Terminology | Segmentation Editor and Terminology]] (Nicole Aucoin, Andrey Fedorov, Csaba Pinter)<br />
* [[2016 Summer Project Week/Segmentations Integration | Integration of Segmentations infrastructure and related modules to Slicer core]] (Csaba Pinter, Andras Lasso)<br />
* [[2016 Summer Project Week/DICOM Parametric Maps | Finalizing DICOM Parametric Map implementation in DCMTK for QIICR project]] (Michael Onken, Jan Schlamelcher)<br />
* [[2016 Summer Project Week/DICOM Tractography Results | Finalizing DICOM Tractography Results implementation in DCMTK for BWH project]] (Michael Onken)<br />
<br />
=== Augmented Reality ===<br />
* [[2016 Summer Project Week/VRPN Integration | VRPN Integration]] (Dženan Zukić)<br />
* [[2016 Summer Project Week/OpenVR_integration | OpenVR Integration]] (Adam Rankin)<br />
<br />
=== Cloud ===<br />
* [[2016 Summer Project Week/medical imaging webapp | Medical Imaging WebApp Software]] (Steve Pieper, Marco Nolden, Hans Meine)<br />
<br />
= '''Registrants''' =<br />
<br />
'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html and then add your name to this list. DKFZ members who will only be attending Monday should only add their name to this 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.<br />
<br />
#Tina Kapur, Brigham and Women's Hospital, Harvard Medical School (BWH/HMS), Boston, USA (Mon)<br />
# Dženan Zukić, Kitware, USA<br />
# Ines Prata Machado, MIT Portugal Program (PhD Student), Lisbon, Portugal. (Mon)<br />
# Sonia Pujol, Brigham and Women's Hospital, Harvard Medical School (Mon)<br />
# Scheherazade Kraß, PhD Student, [http://www.uni-bremen.de/ University of Bremen], [http://www.mic.uni-bremen.de/ Medical Image Computing]group, Germany (Mon)<br />
# Maria Francesca Spadea [http://www.imagenglab.com ImagEngLab], Italy<br />
# Paolo Zaffino [http://www.imagenglab.com ImagEngLab], Italy<br />
# Salvatore Scaramuzzino [http://www.imagenglab.com ImagEngLab], Italy<br />
# Steve Pieper, Isomics, Inc., USA (Mon)<br />
# Nicole Aucoin, Brigham and Women's Hospital (Mon)<br />
# Simon Drouin, Montreal Neurological Institute (Mon)<br />
# Thomas Kirchner, German Cancer Research Center (Mon)<br />
# Elvis Chen, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada (Mon)<br />
# Adam Rankin, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada (Mon)<br />
# Christian Askeland, SINTEF, Norway (Mon)<br />
# Hans Meine, University of Bremen / Fraunhofer MEVIS, Germany<br />
# Longquan Chen, BWH/HMS, Boston, USA (Mon)<br />
# Davide Punzo, Kapteyn Astronomical Institute, Netherlands<br />
# Lauren O'Donnell, BWH/HMS<br />
# Yannick Suter, BWH/HMS<br />
# Junichi Tokuda, BWH/HMS (Mon)<br />
# Sarah Frisken, BWH/HMS (Mon)<br />
# Prashin Unadkat, BWH/HMS<br />
# Anna Roethe, Charite, Berlin<br />
# Michael Onken, Open Connections, Germany<br />
#Jan Schlamelcher, Open Connections/OFFIS, Germany<br />
# Janne Beate Bakeng, SINTEF, Norway<br />
# Ole Vegard Solberg, SINTEF, Norway<br />
# Jon Eiesland, SINTEF, Norway<br />
# Tamas Ungi, Queen's University, Canada (Mon)<br />
# Andras Lasso, Queen's University, Canada (Mon)<br />
# Csaba Pinter, Queen's University, Canada (Mon)<br />
# Thomas Vaughan, Queen's University, Canada (Mon)<br />
# Javier Pascau, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Verónica García-Vazquez, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Mónica García-Sevilla, Universidad Carlos III de Madrid, Spain (Mon)<br />
# David García-Mato, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Rocío López-Velazco, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Raúl San José, BWH/HMS, Boston<br />
# Pietro Nardeli, BWH/HMS, Boston</div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week&diff=926762016 Summer Project Week2016-05-31T13:26:37Z<p>Ungi: /* Registrants */</p>
<hr />
<div>__NOTOC__<br />
<br />
[[image:PW-Summer2016.png|300px]]<br />
<br><br><br />
=Welcome to the web page for the 23rd Project Week!=<br />
The 23rd Project Week open source hackathon is being 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].<br />
<br />
='''Logistics'''=<br />
*'''Dates:''' Monday June 20th to Saturday June 25th, 2016, with one day break on Tuesday June 21st to attend IPCAI.<br />
*'''Location:''' Heidelberg, Germany.<br />
**'''Monday''' at German Cancer Research Center - DKFZ<br />
**'''Tuesday''' there is '''no''' organized Project Week activity due to IPCAI @ CARS<br />
**'''Wednesday-Saturday''' at the Congress Hall of CARS.<br />
*'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html<br />
*'''Registration Fee:''' Euro 650 (after April 26, 2016)<br />
*'''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.<br />
*Preparatory Conference Calls: <br />
**800-501-8979. The pin is 7327389. ([http://www.windstreambusiness.com/resources/user-guides/international-conferencing International dialing instructions are available here])<br />
**Call #1 Tuesday, May 10, 3pm Boston time.<br />
**Call #2 Tuesday, May 17, 3pm Boston time.<br />
**Call #3 Tuesday, May 31, 9am Boston time.<br />
**Call #4 Tuesday, Jun 7, 9am Boston time.<br />
**Call #5 Tuesday, Jun 14, 9am Boston time.<br />
<br />
='''Agenda'''=<br />
<font color="maroon">Please note that on '''Tuesday''' there is no organized Project Week activity due to IPCAI @ CARS</font><br />
{|border="1"<br />
|-style="background:#b0d5e6;color:#02186f"<br />
!style="width:7%" |Time<br />
!style="width:15%" |Monday, June 20 <br> DKFZ <br />
!style="width:3%" |Tuesday, June 21 <br> IPCAI<br />
!style="width:15%" |Wednesday, June 22 <br> Congress Hall of CARS<br />
!style="width:15%" |Thursday, June 23 <br> Congress Hall of CARS<br />
!style="width:15%" |Friday, June 24 <br> Congress Hall of CARS<br />
!style="width:15%" |Saturday, June 25 <br> Congress Hall of CARS<br />
|-<br />
|bgcolor="#ffffdd"|'''9:00am-12:00pm'''<br />
|bgcolor="#ffffff"| DKFZ Discussions<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|Breakout Session: Ultrasound Navigation<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| Progress Review<br />
|-<br />
|bgcolor="#ffffdd"|'''12:00pm-1:00pm'''<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch and adjourn<br />
|-<br />
|bgcolor="#ffffdd"|'''1:00pm-3:00pm'''<br />
|bgcolor="#ffffff"| Welcome! <br> Project Introductions<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|-<br />
|bgcolor="#ffffdd"|'''3:00pm-5:00pm'''<br />
|bgcolor="#ffffff"| 3:30pm: Breakout Session: Slicer Extensions<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|-<br />
|bgcolor="#ffffdd"|'''6:00pm'''<br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"| <br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"|<br />
|-<br />
|}<br />
<br />
='''Background'''=<br />
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.<br />
<br />
[[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. <br />
<br />
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.<br />
<br />
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].<br />
<br />
A summary of all previous Project Events is available [[Project_Events#Past|here]].<br />
<br />
This project week is an event [[Post-NCBC-2014|endorsed]] by the MICCAI society.<br />
<br />
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).<br />
<br />
Please make sure that you are on the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list].<br />
<br />
<br />
='''Equipment'''=<br />
*[[2016_Summer_Project_Week:Equipment|Specialized equipment people are going to bring]] (Please add to this list if you are bringing anything)<br />
*[[2016_Summer_Project_Week:Equipment_Requests|Specialized equipment that people would like to have]]<br />
<br />
='''Projects'''=<br />
* Use this [[2016_Summer_Project_Week_Template | template]] for project pages<br />
<br />
=== IGT ===<br />
* [[2016 Summer Project Week/OpenIGTLink Robotics | Integrating/Using OpenIGTLink for the communications of Robotics devices]] (Scheherazade Kraß)<br />
* [[2016 Summer Project Week/Needle Segmentation from MRI | Needle Segmentation from MRI]] (Tina Kapur, Andre Mastmeyer, Guillaume Pernelle)<br />
* [[2016 Summer Project Week/Guided Ultrasound Calibration | Guided Ultrasound Calibration]] (Elvis Chen)<br />
* [[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)<br />
* [[2016 Summer Project Week/PLUS integration in CustusX via OpenIGTLink | PLUS integration in CustusX via OpenIGTLink]] (Christian Askeland, Janne Beate Bakeng, Ole Vegard Solberg, Jon Eiesland)<br />
<br />
=== Infrastructure ===<br />
* [[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?)<br />
* [[2016 Summer Project Week/Segmentation Editor and Terminology | Segmentation Editor and Terminology]] (Nicole Aucoin, Andrey Fedorov, Csaba Pinter)<br />
* [[2016 Summer Project Week/Segmentations Integration | Integration of Segmentations infrastructure and related modules to Slicer core]] (Csaba Pinter, Andras Lasso)<br />
* [[2016 Summer Project Week/DICOM Parametric Maps | Finalizing DICOM Parametric Map implementation in DCMTK for QIICR project]] (Michael Onken, Jan Schlamelcher)<br />
* [[2016 Summer Project Week/DICOM Tractography Results | Finalizing DICOM Tractography Results implementation in DCMTK for BWH project]] (Michael Onken)<br />
<br />
=== Augmented Reality ===<br />
* [[2016 Summer Project Week/VRPN Integration | VRPN Integration]] (Dženan Zukić)<br />
* [[2016 Summer Project Week/OpenVR_integration | OpenVR Integration]] (Adam Rankin)<br />
<br />
=== Cloud ===<br />
* [[2016 Summer Project Week/medical imaging webapp | Medical Imaging WebApp Software]] (Steve Pieper, Marco Nolden, Hans Meine)<br />
<br />
= '''Registrants''' =<br />
<br />
'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html and then add your name to this list. DKFZ members who will only be attending Monday should only add their name to this 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.<br />
<br />
#Tina Kapur, Brigham and Women's Hospital, Harvard Medical School (BWH/HMS), Boston, USA (Mon)<br />
# Dženan Zukić, Kitware, USA<br />
# Ines Prata Machado, MIT Portugal Program (PhD Student), Lisbon, Portugal. (Mon)<br />
# Sonia Pujol, Brigham and Women's Hospital, Harvard Medical School (Mon)<br />
# Scheherazade Kraß, PhD Student, [http://www.uni-bremen.de/ University of Bremen], [http://www.mic.uni-bremen.de/ Medical Image Computing]group, Germany (Mon)<br />
# Maria Francesca Spadea [http://www.imagenglab.com ImagEngLab], Italy<br />
# Paolo Zaffino [http://www.imagenglab.com ImagEngLab], Italy<br />
# Salvatore Scaramuzzino [http://www.imagenglab.com ImagEngLab], Italy<br />
# Steve Pieper, Isomics, Inc., USA (Mon)<br />
# Nicole Aucoin, Brigham and Women's Hospital (Mon)<br />
# Simon Drouin, Montreal Neurological Institute (Mon)<br />
# Thomas Kirchner, German Cancer Research Center (Mon)<br />
# Elvis Chen, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada (Mon)<br />
# Adam Rankin, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada (Mon)<br />
# Christian Askeland, SINTEF, Norway (Mon)<br />
# Hans Meine, University of Bremen / Fraunhofer MEVIS, Germany<br />
# Longquan Chen, BWH/HMS, Boston, USA (Mon)<br />
# Davide Punzo, Kapteyn Astronomical Institute, Netherlands<br />
# Lauren O'Donnell, BWH/HMS<br />
# Yannick Suter, BWH/HMS<br />
# Junichi Tokuda, BWH/HMS (Mon)<br />
# Sarah Frisken, BWH/HMS (Mon)<br />
# Prashin Unadkat, BWH/HMS<br />
# Anna Roethe, Charite, Berlin<br />
# Michael Onken, Open Connections, Germany<br />
#Jan Schlamelcher, Open Connections/OFFIS, Germany<br />
# Janne Beate Bakeng, SINTEF, Norway<br />
# Ole Vegard Solberg, SINTEF, Norway<br />
# Jon Eiesland, SINTEF, Norway<br />
# Tamas Ungi, Queen's University, Canada (Mon)<br />
# Andras Lasso, Queen's University, Canada (Mon)<br />
# Csaba Pinter, Queen's University, Canada (Mon)<br />
# Thomas Vaughan, Queen's University, Canada (Mon)<br />
# Javier Pascau, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Verónica García-Vazquez, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Mónica García-Sevilla, Universidad Carlos III de Madrid, Spain (Mon)<br />
# David García-Mato, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Rocío López-Velazco, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Raúl San José, BWH/HMS, Boston<br />
# Pietro Nardeli, BWH/HMS, Boston</div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week&diff=926752016 Summer Project Week2016-05-31T13:24:16Z<p>Ungi: /* Registrants */</p>
<hr />
<div>__NOTOC__<br />
<br />
[[image:PW-Summer2016.png|300px]]<br />
<br><br><br />
=Welcome to the web page for the 23rd Project Week!=<br />
The 23rd Project Week open source hackathon is being 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].<br />
<br />
='''Logistics'''=<br />
*'''Dates:''' Monday June 20th to Saturday June 25th, 2016, with one day break on Tuesday June 21st to attend IPCAI.<br />
*'''Location:''' Heidelberg, Germany.<br />
**'''Monday''' at German Cancer Research Center - DKFZ<br />
**'''Tuesday''' there is '''no''' organized Project Week activity due to IPCAI @ CARS<br />
**'''Wednesday-Saturday''' at the Congress Hall of CARS.<br />
*'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html<br />
*'''Registration Fee:''' Euro 650 (after April 26, 2016)<br />
*'''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.<br />
*Preparatory Conference Calls: <br />
**800-501-8979. The pin is 7327389. ([http://www.windstreambusiness.com/resources/user-guides/international-conferencing International dialing instructions are available here])<br />
**Call #1 Tuesday, May 10, 3pm Boston time.<br />
**Call #2 Tuesday, May 17, 3pm Boston time.<br />
**Call #3 Tuesday, May 31, 9am Boston time.<br />
**Call #4 Tuesday, Jun 7, 9am Boston time.<br />
**Call #5 Tuesday, Jun 14, 9am Boston time.<br />
<br />
='''Agenda'''=<br />
<font color="maroon">Please note that on '''Tuesday''' there is no organized Project Week activity due to IPCAI @ CARS</font><br />
{|border="1"<br />
|-style="background:#b0d5e6;color:#02186f"<br />
!style="width:7%" |Time<br />
!style="width:15%" |Monday, June 20 <br> DKFZ <br />
!style="width:3%" |Tuesday, June 21 <br> IPCAI<br />
!style="width:15%" |Wednesday, June 22 <br> Congress Hall of CARS<br />
!style="width:15%" |Thursday, June 23 <br> Congress Hall of CARS<br />
!style="width:15%" |Friday, June 24 <br> Congress Hall of CARS<br />
!style="width:15%" |Saturday, June 25 <br> Congress Hall of CARS<br />
|-<br />
|bgcolor="#ffffdd"|'''9:00am-12:00pm'''<br />
|bgcolor="#ffffff"| DKFZ Discussions<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|Breakout Session: Ultrasound Navigation<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| Progress Review<br />
|-<br />
|bgcolor="#ffffdd"|'''12:00pm-1:00pm'''<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch and adjourn<br />
|-<br />
|bgcolor="#ffffdd"|'''1:00pm-3:00pm'''<br />
|bgcolor="#ffffff"| Welcome! <br> Project Introductions<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|-<br />
|bgcolor="#ffffdd"|'''3:00pm-5:00pm'''<br />
|bgcolor="#ffffff"| 3:30pm: Breakout Session: Slicer Extensions<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|-<br />
|bgcolor="#ffffdd"|'''6:00pm'''<br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"| <br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"|<br />
|-<br />
|}<br />
<br />
='''Background'''=<br />
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.<br />
<br />
[[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. <br />
<br />
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.<br />
<br />
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].<br />
<br />
A summary of all previous Project Events is available [[Project_Events#Past|here]].<br />
<br />
This project week is an event [[Post-NCBC-2014|endorsed]] by the MICCAI society.<br />
<br />
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).<br />
<br />
Please make sure that you are on the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list].<br />
<br />
<br />
='''Equipment'''=<br />
*[[2016_Summer_Project_Week:Equipment|Specialized equipment people are going to bring]] (Please add to this list if you are bringing anything)<br />
*[[2016_Summer_Project_Week:Equipment_Requests|Specialized equipment that people would like to have]]<br />
<br />
='''Projects'''=<br />
* Use this [[2016_Summer_Project_Week_Template | template]] for project pages<br />
<br />
=== IGT ===<br />
* [[2016 Summer Project Week/OpenIGTLink Robotics | Integrating/Using OpenIGTLink for the communications of Robotics devices]] (Scheherazade Kraß)<br />
* [[2016 Summer Project Week/Needle Segmentation from MRI | Needle Segmentation from MRI]] (Tina Kapur, Andre Mastmeyer, Guillaume Pernelle)<br />
* [[2016 Summer Project Week/Guided Ultrasound Calibration | Guided Ultrasound Calibration]] (Elvis Chen)<br />
* [[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)<br />
* [[2016 Summer Project Week/PLUS integration in CustusX via OpenIGTLink | PLUS integration in CustusX via OpenIGTLink]] (Christian Askeland, Janne Beate Bakeng, Ole Vegard Solberg, Jon Eiesland)<br />
<br />
=== Infrastructure ===<br />
* [[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?)<br />
* [[2016 Summer Project Week/Segmentation Editor and Terminology | Segmentation Editor and Terminology]] (Nicole Aucoin, Andrey Fedorov, Csaba Pinter)<br />
* [[2016 Summer Project Week/Segmentations Integration | Integration of Segmentations infrastructure and related modules to Slicer core]] (Csaba Pinter, Andras Lasso)<br />
* [[2016 Summer Project Week/DICOM Parametric Maps | Finalizing DICOM Parametric Map implementation in DCMTK for QIICR project]] (Michael Onken, Jan Schlamelcher)<br />
* [[2016 Summer Project Week/DICOM Tractography Results | Finalizing DICOM Tractography Results implementation in DCMTK for BWH project]] (Michael Onken)<br />
<br />
=== Augmented Reality ===<br />
* [[2016 Summer Project Week/VRPN Integration | VRPN Integration]] (Dženan Zukić)<br />
* [[2016 Summer Project Week/OpenVR_integration | OpenVR Integration]] (Adam Rankin)<br />
<br />
=== Cloud ===<br />
* [[2016 Summer Project Week/medical imaging webapp | Medical Imaging WebApp Software]] (Steve Pieper, Marco Nolden, Hans Meine)<br />
<br />
= '''Registrants''' =<br />
<br />
'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html and then add your name to this list. DKFZ members who will only be attending Monday should only add their name to this list.<br />
<br />
#Tina Kapur, Brigham and Women's Hospital, Harvard Medical School (BWH/HMS), Boston, USA (Mon)<br />
# Dženan Zukić, Kitware, USA<br />
# Ines Prata Machado, MIT Portugal Program (PhD Student), Lisbon, Portugal. (Mon)<br />
# Sonia Pujol, Brigham and Women's Hospital, Harvard Medical School (Mon)<br />
# Scheherazade Kraß, PhD Student, [http://www.uni-bremen.de/ University of Bremen], [http://www.mic.uni-bremen.de/ Medical Image Computing]group, Germany (Mon)<br />
# Maria Francesca Spadea [http://www.imagenglab.com ImagEngLab], Italy<br />
# Paolo Zaffino [http://www.imagenglab.com ImagEngLab], Italy<br />
# Salvatore Scaramuzzino [http://www.imagenglab.com ImagEngLab], Italy<br />
# Steve Pieper, Isomics, Inc., USA (Mon)<br />
# Nicole Aucoin, Brigham and Women's Hospital (Mon)<br />
# Simon Drouin, Montreal Neurological Institute (Mon)<br />
# Thomas Kirchner, German Cancer Research Center (Mon)<br />
# Elvis Chen, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada (Mon)<br />
# Adam Rankin, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada (Mon)<br />
# Christian Askeland, SINTEF, Norway (Mon)<br />
# Hans Meine, University of Bremen / Fraunhofer MEVIS, Germany<br />
# Longquan Chen, BWH/HMS, Boston, USA (Mon)<br />
# Davide Punzo, Kapteyn Astronomical Institute, Netherlands<br />
# Lauren O'Donnell, BWH/HMS<br />
# Yannick Suter, BWH/HMS<br />
# Junichi Tokuda, BWH/HMS (Mon)<br />
# Sarah Frisken, BWH/HMS (Mon)<br />
# Prashin Unadkat, BWH/HMS<br />
# Anna Roethe, Charite, Berlin<br />
# Michael Onken, Open Connections, Germany<br />
#Jan Schlamelcher, Open Connections/OFFIS, Germany<br />
# Janne Beate Bakeng, SINTEF, Norway<br />
# Ole Vegard Solberg, SINTEF, Norway<br />
# Jon Eiesland, SINTEF, Norway<br />
# Tamas Ungi, Queen's University, Canada (Mon)<br />
# Andras Lasso, Queen's University, Canada (Mon)<br />
# Csaba Pinter, Queen's University, Canada (Mon)<br />
# Thomas Vaughan, Queen's University, Canada (Mon)<br />
# Javier Pascau, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Verónica García-Vazquez, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Mónica García-Sevilla, Universidad Carlos III de Madrid, Spain (Mon)<br />
# David García-Mato, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Rocío López-Velazco, Universidad Carlos III de Madrid, Spain (Mon)<br />
# Raúl San José, BWH/HMS, Boston<br />
# Pietro Nardeli, BWH/HMS, Boston</div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week&diff=926742016 Summer Project Week2016-05-31T13:23:20Z<p>Ungi: /* Registrants */</p>
<hr />
<div>__NOTOC__<br />
<br />
[[image:PW-Summer2016.png|300px]]<br />
<br><br><br />
=Welcome to the web page for the 23rd Project Week!=<br />
The 23rd Project Week open source hackathon is being 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].<br />
<br />
='''Logistics'''=<br />
*'''Dates:''' Monday June 20th to Saturday June 25th, 2016, with one day break on Tuesday June 21st to attend IPCAI.<br />
*'''Location:''' Heidelberg, Germany.<br />
**'''Monday''' at German Cancer Research Center - DKFZ<br />
**'''Tuesday''' there is '''no''' organized Project Week activity due to IPCAI @ CARS<br />
**'''Wednesday-Saturday''' at the Congress Hall of CARS.<br />
*'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html<br />
*'''Registration Fee:''' Euro 650 (after April 26, 2016)<br />
*'''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.<br />
*Preparatory Conference Calls: <br />
**800-501-8979. The pin is 7327389. ([http://www.windstreambusiness.com/resources/user-guides/international-conferencing International dialing instructions are available here])<br />
**Call #1 Tuesday, May 10, 3pm Boston time.<br />
**Call #2 Tuesday, May 17, 3pm Boston time.<br />
**Call #3 Tuesday, May 31, 9am Boston time.<br />
**Call #4 Tuesday, Jun 7, 9am Boston time.<br />
**Call #5 Tuesday, Jun 14, 9am Boston time.<br />
<br />
='''Agenda'''=<br />
<font color="maroon">Please note that on '''Tuesday''' there is no organized Project Week activity due to IPCAI @ CARS</font><br />
{|border="1"<br />
|-style="background:#b0d5e6;color:#02186f"<br />
!style="width:7%" |Time<br />
!style="width:15%" |Monday, June 20 <br> DKFZ <br />
!style="width:3%" |Tuesday, June 21 <br> IPCAI<br />
!style="width:15%" |Wednesday, June 22 <br> Congress Hall of CARS<br />
!style="width:15%" |Thursday, June 23 <br> Congress Hall of CARS<br />
!style="width:15%" |Friday, June 24 <br> Congress Hall of CARS<br />
!style="width:15%" |Saturday, June 25 <br> Congress Hall of CARS<br />
|-<br />
|bgcolor="#ffffdd"|'''9:00am-12:00pm'''<br />
|bgcolor="#ffffff"| DKFZ Discussions<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|Breakout Session: Ultrasound Navigation<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| Progress Review<br />
|-<br />
|bgcolor="#ffffdd"|'''12:00pm-1:00pm'''<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch and adjourn<br />
|-<br />
|bgcolor="#ffffdd"|'''1:00pm-3:00pm'''<br />
|bgcolor="#ffffff"| Welcome! <br> Project Introductions<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|-<br />
|bgcolor="#ffffdd"|'''3:00pm-5:00pm'''<br />
|bgcolor="#ffffff"| 3:30pm: Breakout Session: Slicer Extensions<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|-<br />
|bgcolor="#ffffdd"|'''6:00pm'''<br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"| <br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"|<br />
|-<br />
|}<br />
<br />
='''Background'''=<br />
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.<br />
<br />
[[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. <br />
<br />
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.<br />
<br />
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].<br />
<br />
A summary of all previous Project Events is available [[Project_Events#Past|here]].<br />
<br />
This project week is an event [[Post-NCBC-2014|endorsed]] by the MICCAI society.<br />
<br />
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).<br />
<br />
Please make sure that you are on the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list].<br />
<br />
<br />
='''Equipment'''=<br />
*[[2016_Summer_Project_Week:Equipment|Specialized equipment people are going to bring]] (Please add to this list if you are bringing anything)<br />
*[[2016_Summer_Project_Week:Equipment_Requests|Specialized equipment that people would like to have]]<br />
<br />
='''Projects'''=<br />
* Use this [[2016_Summer_Project_Week_Template | template]] for project pages<br />
<br />
=== IGT ===<br />
* [[2016 Summer Project Week/OpenIGTLink Robotics | Integrating/Using OpenIGTLink for the communications of Robotics devices]] (Scheherazade Kraß)<br />
* [[2016 Summer Project Week/Needle Segmentation from MRI | Needle Segmentation from MRI]] (Tina Kapur, Andre Mastmeyer, Guillaume Pernelle)<br />
* [[2016 Summer Project Week/Guided Ultrasound Calibration | Guided Ultrasound Calibration]] (Elvis Chen)<br />
* [[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)<br />
* [[2016 Summer Project Week/PLUS integration in CustusX via OpenIGTLink | PLUS integration in CustusX via OpenIGTLink]] (Christian Askeland, Janne Beate Bakeng, Ole Vegard Solberg, Jon Eiesland)<br />
<br />
=== Infrastructure ===<br />
* [[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?)<br />
* [[2016 Summer Project Week/Segmentation Editor and Terminology | Segmentation Editor and Terminology]] (Nicole Aucoin, Andrey Fedorov, Csaba Pinter)<br />
* [[2016 Summer Project Week/Segmentations Integration | Integration of Segmentations infrastructure and related modules to Slicer core]] (Csaba Pinter, Andras Lasso)<br />
* [[2016 Summer Project Week/DICOM Parametric Maps | Finalizing DICOM Parametric Map implementation in DCMTK for QIICR project]] (Michael Onken, Jan Schlamelcher)<br />
* [[2016 Summer Project Week/DICOM Tractography Results | Finalizing DICOM Tractography Results implementation in DCMTK for BWH project]] (Michael Onken)<br />
<br />
=== Augmented Reality ===<br />
* [[2016 Summer Project Week/VRPN Integration | VRPN Integration]] (Dženan Zukić)<br />
* [[2016 Summer Project Week/OpenVR_integration | OpenVR Integration]] (Adam Rankin)<br />
<br />
=== Cloud ===<br />
* [[2016 Summer Project Week/medical imaging webapp | Medical Imaging WebApp Software]] (Steve Pieper, Marco Nolden, Hans Meine)<br />
<br />
= '''Registrants''' =<br />
<br />
'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html and then add your name to this list. DKFZ members who will only be attending Monday should only add their name to this list.<br />
<br />
#Tina Kapur, Brigham and Women's Hospital, Harvard Medical School (BWH/HMS), Boston, USA (Mon)<br />
# Dženan Zukić, Kitware, USA<br />
# Ines Prata Machado, MIT Portugal Program (PhD Student), Lisbon, Portugal. (Mon)<br />
# Sonia Pujol, Brigham and Women's Hospital, Harvard Medical School (Mon)<br />
# Scheherazade Kraß, PhD Student, [http://www.uni-bremen.de/ University of Bremen], [http://www.mic.uni-bremen.de/ Medical Image Computing]group, Germany (Mon)<br />
# Maria Francesca Spadea [http://www.imagenglab.com ImagEngLab], Italy<br />
# Paolo Zaffino [http://www.imagenglab.com ImagEngLab], Italy<br />
# Salvatore Scaramuzzino [http://www.imagenglab.com ImagEngLab], Italy<br />
# Steve Pieper, Isomics, Inc., USA (Mon)<br />
# Nicole Aucoin, Brigham and Women's Hospital (Mon)<br />
# Simon Drouin, Montreal Neurological Institute (Mon)<br />
# Thomas Kirchner, German Cancer Research Center (Mon)<br />
# Elvis Chen, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada (Mon)<br />
# Adam Rankin, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada (Mon)<br />
# Christian Askeland, SINTEF, Norway (Mon)<br />
# Hans Meine, University of Bremen / Fraunhofer MEVIS, Germany<br />
# Longquan Chen, BWH/HMS, Boston, USA (Mon)<br />
# Davide Punzo, Kapteyn Astronomical Institute, Netherlands<br />
# Lauren O'Donnell, BWH/HMS<br />
# Yannick Suter, BWH/HMS<br />
# Junichi Tokuda, BWH/HMS<br />
# Sarah Frisken, BWH/HMS<br />
# Prashin Unadkat, BWH/HMS<br />
# Anna Roethe, Charite, Berlin<br />
# Michael Onken, Open Connections, Germany<br />
#Jan Schlamelcher, Open Connections/OFFIS, Germany<br />
# Janne Beate Bakeng, SINTEF, Norway<br />
# Ole Vegard Solberg, SINTEF, Norway<br />
# Jon Eiesland, SINTEF, Norway<br />
# Tamas Ungi, Queen's University, Canada<br />
# Andras Lasso, Queen's University, Canada<br />
# Csaba Pinter, Queen's University, Canada<br />
# Thomas Vaughan, Queen's University, Canada<br />
# Javier Pascau, Universidad Carlos III de Madrid, Spain<br />
# Verónica García-Vazquez, Universidad Carlos III de Madrid, Spain<br />
# Mónica García-Sevilla, Universidad Carlos III de Madrid, Spain<br />
# David García-Mato, Universidad Carlos III de Madrid, Spain<br />
# Rocío López-Velazco, Universidad Carlos III de Madrid, Spain<br />
# Raúl San José, BWH/HMS, Boston<br />
# Pietro Nardeli, BWH/HMS, Boston</div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week&diff=926732016 Summer Project Week2016-05-31T13:22:37Z<p>Ungi: /* Registrants */</p>
<hr />
<div>__NOTOC__<br />
<br />
[[image:PW-Summer2016.png|300px]]<br />
<br><br><br />
=Welcome to the web page for the 23rd Project Week!=<br />
The 23rd Project Week open source hackathon is being 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].<br />
<br />
='''Logistics'''=<br />
*'''Dates:''' Monday June 20th to Saturday June 25th, 2016, with one day break on Tuesday June 21st to attend IPCAI.<br />
*'''Location:''' Heidelberg, Germany.<br />
**'''Monday''' at German Cancer Research Center - DKFZ<br />
**'''Tuesday''' there is '''no''' organized Project Week activity due to IPCAI @ CARS<br />
**'''Wednesday-Saturday''' at the Congress Hall of CARS.<br />
*'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html<br />
*'''Registration Fee:''' Euro 650 (after April 26, 2016)<br />
*'''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.<br />
*Preparatory Conference Calls: <br />
**800-501-8979. The pin is 7327389. ([http://www.windstreambusiness.com/resources/user-guides/international-conferencing International dialing instructions are available here])<br />
**Call #1 Tuesday, May 10, 3pm Boston time.<br />
**Call #2 Tuesday, May 17, 3pm Boston time.<br />
**Call #3 Tuesday, May 31, 9am Boston time.<br />
**Call #4 Tuesday, Jun 7, 9am Boston time.<br />
**Call #5 Tuesday, Jun 14, 9am Boston time.<br />
<br />
='''Agenda'''=<br />
<font color="maroon">Please note that on '''Tuesday''' there is no organized Project Week activity due to IPCAI @ CARS</font><br />
{|border="1"<br />
|-style="background:#b0d5e6;color:#02186f"<br />
!style="width:7%" |Time<br />
!style="width:15%" |Monday, June 20 <br> DKFZ <br />
!style="width:3%" |Tuesday, June 21 <br> IPCAI<br />
!style="width:15%" |Wednesday, June 22 <br> Congress Hall of CARS<br />
!style="width:15%" |Thursday, June 23 <br> Congress Hall of CARS<br />
!style="width:15%" |Friday, June 24 <br> Congress Hall of CARS<br />
!style="width:15%" |Saturday, June 25 <br> Congress Hall of CARS<br />
|-<br />
|bgcolor="#ffffdd"|'''9:00am-12:00pm'''<br />
|bgcolor="#ffffff"| DKFZ Discussions<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|Breakout Session: Ultrasound Navigation<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| Progress Review<br />
|-<br />
|bgcolor="#ffffdd"|'''12:00pm-1:00pm'''<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch and adjourn<br />
|-<br />
|bgcolor="#ffffdd"|'''1:00pm-3:00pm'''<br />
|bgcolor="#ffffff"| Welcome! <br> Project Introductions<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|-<br />
|bgcolor="#ffffdd"|'''3:00pm-5:00pm'''<br />
|bgcolor="#ffffff"| 3:30pm: Breakout Session: Slicer Extensions<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|-<br />
|bgcolor="#ffffdd"|'''6:00pm'''<br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"| <br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"|<br />
|-<br />
|}<br />
<br />
='''Background'''=<br />
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.<br />
<br />
[[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. <br />
<br />
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.<br />
<br />
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].<br />
<br />
A summary of all previous Project Events is available [[Project_Events#Past|here]].<br />
<br />
This project week is an event [[Post-NCBC-2014|endorsed]] by the MICCAI society.<br />
<br />
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).<br />
<br />
Please make sure that you are on the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list].<br />
<br />
<br />
='''Equipment'''=<br />
*[[2016_Summer_Project_Week:Equipment|Specialized equipment people are going to bring]] (Please add to this list if you are bringing anything)<br />
*[[2016_Summer_Project_Week:Equipment_Requests|Specialized equipment that people would like to have]]<br />
<br />
='''Projects'''=<br />
* Use this [[2016_Summer_Project_Week_Template | template]] for project pages<br />
<br />
=== IGT ===<br />
* [[2016 Summer Project Week/OpenIGTLink Robotics | Integrating/Using OpenIGTLink for the communications of Robotics devices]] (Scheherazade Kraß)<br />
* [[2016 Summer Project Week/Needle Segmentation from MRI | Needle Segmentation from MRI]] (Tina Kapur, Andre Mastmeyer, Guillaume Pernelle)<br />
* [[2016 Summer Project Week/Guided Ultrasound Calibration | Guided Ultrasound Calibration]] (Elvis Chen)<br />
* [[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)<br />
* [[2016 Summer Project Week/PLUS integration in CustusX via OpenIGTLink | PLUS integration in CustusX via OpenIGTLink]] (Christian Askeland, Janne Beate Bakeng, Ole Vegard Solberg, Jon Eiesland)<br />
<br />
=== Infrastructure ===<br />
* [[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?)<br />
* [[2016 Summer Project Week/Segmentation Editor and Terminology | Segmentation Editor and Terminology]] (Nicole Aucoin, Andrey Fedorov, Csaba Pinter)<br />
* [[2016 Summer Project Week/Segmentations Integration | Integration of Segmentations infrastructure and related modules to Slicer core]] (Csaba Pinter, Andras Lasso)<br />
* [[2016 Summer Project Week/DICOM Parametric Maps | Finalizing DICOM Parametric Map implementation in DCMTK for QIICR project]] (Michael Onken, Jan Schlamelcher)<br />
* [[2016 Summer Project Week/DICOM Tractography Results | Finalizing DICOM Tractography Results implementation in DCMTK for BWH project]] (Michael Onken)<br />
<br />
=== Augmented Reality ===<br />
* [[2016 Summer Project Week/VRPN Integration | VRPN Integration]] (Dženan Zukić)<br />
* [[2016 Summer Project Week/OpenVR_integration | OpenVR Integration]] (Adam Rankin)<br />
<br />
=== Cloud ===<br />
* [[2016 Summer Project Week/medical imaging webapp | Medical Imaging WebApp Software]] (Steve Pieper, Marco Nolden, Hans Meine)<br />
<br />
= '''Registrants''' =<br />
<br />
'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html and then add your name to this list. DKFZ members who will only be attending Monday should only add their name to this list.<br />
<br />
#Tina Kapur, Brigham and Women's Hospital, Harvard Medical School (BWH/HMS), Boston, USA (Mon)<br />
# Dženan Zukić, Kitware, USA<br />
# Ines Prata Machado, MIT Portugal Program (PhD Student), Lisbon, Portugal. (Mon)<br />
# Sonia Pujol, Brigham and Women's Hospital, Harvard Medical School (Mon)<br />
# Scheherazade Kraß, PhD Student, [http://www.uni-bremen.de/ University of Bremen], [http://www.mic.uni-bremen.de/ Medical Image Computing]group, Germany (Mon)<br />
# Maria Francesca Spadea [http://www.imagenglab.com ImagEngLab], Italy<br />
# Paolo Zaffino [http://www.imagenglab.com ImagEngLab], Italy<br />
# Salvatore Scaramuzzino [http://www.imagenglab.com ImagEngLab], Italy<br />
# Steve Pieper, Isomics, Inc., USA (Mon)<br />
# Nicole Aucoin, Brigham and Women's Hospital (Mon)<br />
# Simon Drouin, Montreal Neurological Institute (Mon)<br />
# Thomas Kirchner, German Cancer Research Center (Mon)<br />
# Elvis Chen, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada (Mon)<br />
# Adam Rankin, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada (Mon)<br />
# Christian Askeland, SINTEF, Norway (Mon)<br />
# Hans Meine, University of Bremen / Fraunhofer MEVIS, Germany<br />
# Longquan Chen, BWH/HMS, Boston, USA<br />
# Davide Punzo, Kapteyn Astronomical Institute, Netherlands<br />
# Lauren O'Donnell, BWH/HMS<br />
# Yannick Suter, BWH/HMS<br />
# Junichi Tokuda, BWH/HMS<br />
#Sarah Frisken, BWH/HMS<br />
#Prashin Unadkat, BWH/HMS<br />
#Anna Roethe, Charite, Berlin<br />
#Michael Onken, Open Connections, Germany<br />
#Jan Schlamelcher, Open Connections/OFFIS, Germany<br />
# Janne Beate Bakeng, SINTEF, Norway<br />
# Ole Vegard Solberg, SINTEF, Norway<br />
# Jon Eiesland, SINTEF, Norway<br />
# Tamas Ungi, Queen's University, Canada<br />
# Andras Lasso, Queen's University, Canada<br />
# Csaba Pinter, Queen's University, Canada<br />
# Thomas Vaughan, Queen's University, Canada<br />
# Javier Pascau, Universidad Carlos III de Madrid, Spain<br />
# Verónica García-Vazquez, Universidad Carlos III de Madrid, Spain<br />
# Mónica García-Sevilla, Universidad Carlos III de Madrid, Spain<br />
# David García-Mato, Universidad Carlos III de Madrid, Spain<br />
# Rocío López-Velazco, Universidad Carlos III de Madrid, Spain<br />
# Raúl San José, BWH/HMS, Boston<br />
# Pietro Nardeli, BWH/HMS, Boston</div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week&diff=926722016 Summer Project Week2016-05-31T13:21:59Z<p>Ungi: /* Registrants */</p>
<hr />
<div>__NOTOC__<br />
<br />
[[image:PW-Summer2016.png|300px]]<br />
<br><br><br />
=Welcome to the web page for the 23rd Project Week!=<br />
The 23rd Project Week open source hackathon is being 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].<br />
<br />
='''Logistics'''=<br />
*'''Dates:''' Monday June 20th to Saturday June 25th, 2016, with one day break on Tuesday June 21st to attend IPCAI.<br />
*'''Location:''' Heidelberg, Germany.<br />
**'''Monday''' at German Cancer Research Center - DKFZ<br />
**'''Tuesday''' there is '''no''' organized Project Week activity due to IPCAI @ CARS<br />
**'''Wednesday-Saturday''' at the Congress Hall of CARS.<br />
*'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html<br />
*'''Registration Fee:''' Euro 650 (after April 26, 2016)<br />
*'''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.<br />
*Preparatory Conference Calls: <br />
**800-501-8979. The pin is 7327389. ([http://www.windstreambusiness.com/resources/user-guides/international-conferencing International dialing instructions are available here])<br />
**Call #1 Tuesday, May 10, 3pm Boston time.<br />
**Call #2 Tuesday, May 17, 3pm Boston time.<br />
**Call #3 Tuesday, May 31, 9am Boston time.<br />
**Call #4 Tuesday, Jun 7, 9am Boston time.<br />
**Call #5 Tuesday, Jun 14, 9am Boston time.<br />
<br />
='''Agenda'''=<br />
<font color="maroon">Please note that on '''Tuesday''' there is no organized Project Week activity due to IPCAI @ CARS</font><br />
{|border="1"<br />
|-style="background:#b0d5e6;color:#02186f"<br />
!style="width:7%" |Time<br />
!style="width:15%" |Monday, June 20 <br> DKFZ <br />
!style="width:3%" |Tuesday, June 21 <br> IPCAI<br />
!style="width:15%" |Wednesday, June 22 <br> Congress Hall of CARS<br />
!style="width:15%" |Thursday, June 23 <br> Congress Hall of CARS<br />
!style="width:15%" |Friday, June 24 <br> Congress Hall of CARS<br />
!style="width:15%" |Saturday, June 25 <br> Congress Hall of CARS<br />
|-<br />
|bgcolor="#ffffdd"|'''9:00am-12:00pm'''<br />
|bgcolor="#ffffff"| DKFZ Discussions<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|Breakout Session: Ultrasound Navigation<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| Progress Review<br />
|-<br />
|bgcolor="#ffffdd"|'''12:00pm-1:00pm'''<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch and adjourn<br />
|-<br />
|bgcolor="#ffffdd"|'''1:00pm-3:00pm'''<br />
|bgcolor="#ffffff"| Welcome! <br> Project Introductions<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|-<br />
|bgcolor="#ffffdd"|'''3:00pm-5:00pm'''<br />
|bgcolor="#ffffff"| 3:30pm: Breakout Session: Slicer Extensions<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|-<br />
|bgcolor="#ffffdd"|'''6:00pm'''<br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"| <br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"|<br />
|-<br />
|}<br />
<br />
='''Background'''=<br />
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.<br />
<br />
[[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. <br />
<br />
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.<br />
<br />
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].<br />
<br />
A summary of all previous Project Events is available [[Project_Events#Past|here]].<br />
<br />
This project week is an event [[Post-NCBC-2014|endorsed]] by the MICCAI society.<br />
<br />
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).<br />
<br />
Please make sure that you are on the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list].<br />
<br />
<br />
='''Equipment'''=<br />
*[[2016_Summer_Project_Week:Equipment|Specialized equipment people are going to bring]] (Please add to this list if you are bringing anything)<br />
*[[2016_Summer_Project_Week:Equipment_Requests|Specialized equipment that people would like to have]]<br />
<br />
='''Projects'''=<br />
* Use this [[2016_Summer_Project_Week_Template | template]] for project pages<br />
<br />
=== IGT ===<br />
* [[2016 Summer Project Week/OpenIGTLink Robotics | Integrating/Using OpenIGTLink for the communications of Robotics devices]] (Scheherazade Kraß)<br />
* [[2016 Summer Project Week/Needle Segmentation from MRI | Needle Segmentation from MRI]] (Tina Kapur, Andre Mastmeyer, Guillaume Pernelle)<br />
* [[2016 Summer Project Week/Guided Ultrasound Calibration | Guided Ultrasound Calibration]] (Elvis Chen)<br />
* [[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)<br />
* [[2016 Summer Project Week/PLUS integration in CustusX via OpenIGTLink | PLUS integration in CustusX via OpenIGTLink]] (Christian Askeland, Janne Beate Bakeng, Ole Vegard Solberg, Jon Eiesland)<br />
<br />
=== Infrastructure ===<br />
* [[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?)<br />
* [[2016 Summer Project Week/Segmentation Editor and Terminology | Segmentation Editor and Terminology]] (Nicole Aucoin, Andrey Fedorov, Csaba Pinter)<br />
* [[2016 Summer Project Week/Segmentations Integration | Integration of Segmentations infrastructure and related modules to Slicer core]] (Csaba Pinter, Andras Lasso)<br />
* [[2016 Summer Project Week/DICOM Parametric Maps | Finalizing DICOM Parametric Map implementation in DCMTK for QIICR project]] (Michael Onken, Jan Schlamelcher)<br />
* [[2016 Summer Project Week/DICOM Tractography Results | Finalizing DICOM Tractography Results implementation in DCMTK for BWH project]] (Michael Onken)<br />
<br />
=== Augmented Reality ===<br />
* [[2016 Summer Project Week/VRPN Integration | VRPN Integration]] (Dženan Zukić)<br />
* [[2016 Summer Project Week/OpenVR_integration | OpenVR Integration]] (Adam Rankin)<br />
<br />
=== Cloud ===<br />
* [[2016 Summer Project Week/medical imaging webapp | Medical Imaging WebApp Software]] (Steve Pieper, Marco Nolden, Hans Meine)<br />
<br />
= '''Registrants''' =<br />
<br />
'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html and then add your name to this list. DKFZ members who will only be attending Monday should only add their name to this list.<br />
<br />
#Tina Kapur, Brigham and Women's Hospital, Harvard Medical School (BWH/HMS), Boston, USA (Mon)<br />
# Dženan Zukić, Kitware, USA<br />
# Ines Prata Machado, MIT Portugal Program (PhD Student), Lisbon, Portugal. (Mon)<br />
# Sonia Pujol, Brigham and Women's Hospital, Harvard Medical School (Mon)<br />
# Scheherazade Kraß, PhD Student, [http://www.uni-bremen.de/ University of Bremen], [http://www.mic.uni-bremen.de/ Medical Image Computing]group, Germany (Mon)<br />
# Maria Francesca Spadea [http://www.imagenglab.com ImagEngLab], Italy<br />
# Paolo Zaffino [http://www.imagenglab.com ImagEngLab], Italy<br />
# Salvatore Scaramuzzino [http://www.imagenglab.com ImagEngLab], Italy<br />
# Steve Pieper, Isomics, Inc., USA (Mon)<br />
# Nicole Aucoin, Brigham and Women's Hospital<br />
# Simon Drouin, Montreal Neurological Institute<br />
# Thomas Kirchner, German Cancer Research Center<br />
# Elvis Chen, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada<br />
# Adam Rankin, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada<br />
# Christian Askeland, SINTEF, Norway<br />
# Hans Meine, University of Bremen / Fraunhofer MEVIS, Germany<br />
# Longquan Chen, BWH/HMS, Boston, USA<br />
# Davide Punzo, Kapteyn Astronomical Institute, Netherlands<br />
# Lauren O'Donnell, BWH/HMS<br />
# Yannick Suter, BWH/HMS<br />
# Junichi Tokuda, BWH/HMS<br />
#Sarah Frisken, BWH/HMS<br />
#Prashin Unadkat, BWH/HMS<br />
#Anna Roethe, Charite, Berlin<br />
#Michael Onken, Open Connections, Germany<br />
#Jan Schlamelcher, Open Connections/OFFIS, Germany<br />
# Janne Beate Bakeng, SINTEF, Norway<br />
# Ole Vegard Solberg, SINTEF, Norway<br />
# Jon Eiesland, SINTEF, Norway<br />
# Tamas Ungi, Queen's University, Canada<br />
# Andras Lasso, Queen's University, Canada<br />
# Csaba Pinter, Queen's University, Canada<br />
# Thomas Vaughan, Queen's University, Canada<br />
# Javier Pascau, Universidad Carlos III de Madrid, Spain<br />
# Verónica García-Vazquez, Universidad Carlos III de Madrid, Spain<br />
# Mónica García-Sevilla, Universidad Carlos III de Madrid, Spain<br />
# David García-Mato, Universidad Carlos III de Madrid, Spain<br />
# Rocío López-Velazco, Universidad Carlos III de Madrid, Spain<br />
# Raúl San José, BWH/HMS, Boston<br />
# Pietro Nardeli, BWH/HMS, Boston</div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week&diff=926692016 Summer Project Week2016-05-31T13:07:28Z<p>Ungi: /* Registrants */</p>
<hr />
<div>__NOTOC__<br />
<br />
[[image:PW-Summer2016.png|300px]]<br />
<br><br><br />
=Welcome to the web page for the 23rd Project Week!=<br />
The 23rd Project Week open source hackathon is being 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].<br />
<br />
='''Logistics'''=<br />
*'''Dates:''' Monday June 20th to Saturday June 25th, 2016, with one day break on Tuesday June 21st to attend IPCAI.<br />
*'''Location:''' Heidelberg, Germany.<br />
**'''Monday''' at German Cancer Research Center - DKFZ<br />
**'''Tuesday''' there is '''no''' organized Project Week activity due to IPCAI @ CARS<br />
**'''Wednesday-Saturday''' at the Congress Hall of CARS.<br />
*'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html<br />
*'''Registration Fee:''' Euro 650 (after April 26, 2016)<br />
*'''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.<br />
*Preparatory Conference Calls: <br />
**800-501-8979. The pin is 7327389. ([http://www.windstreambusiness.com/resources/user-guides/international-conferencing International dialing instructions are available here])<br />
**Call #1 Tuesday, May 10, 3pm Boston time.<br />
**Call #2 Tuesday, May 17, 3pm Boston time.<br />
**Call #3 Tuesday, May 31, 9am Boston time.<br />
**Call #4 Tuesday, Jun 7, 9am Boston time.<br />
**Call #5 Tuesday, Jun 14, 9am Boston time.<br />
<br />
='''Agenda'''=<br />
<font color="maroon">Please note that on '''Tuesday''' there is no organized Project Week activity due to IPCAI @ CARS</font><br />
{|border="1"<br />
|-style="background:#b0d5e6;color:#02186f"<br />
!style="width:7%" |Time<br />
!style="width:15%" |Monday, June 20 <br> DKFZ <br />
!style="width:3%" |Tuesday, June 21 <br> IPCAI<br />
!style="width:15%" |Wednesday, June 22 <br> Congress Hall of CARS<br />
!style="width:15%" |Thursday, June 23 <br> Congress Hall of CARS<br />
!style="width:15%" |Friday, June 24 <br> Congress Hall of CARS<br />
!style="width:15%" |Saturday, June 25 <br> Congress Hall of CARS<br />
|-<br />
|bgcolor="#ffffdd"|'''9:00am-12:00pm'''<br />
|bgcolor="#ffffff"| DKFZ Discussions<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|Breakout Session: Ultrasound Navigation<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| Progress Review<br />
|-<br />
|bgcolor="#ffffdd"|'''12:00pm-1:00pm'''<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch and adjourn<br />
|-<br />
|bgcolor="#ffffdd"|'''1:00pm-3:00pm'''<br />
|bgcolor="#ffffff"| Welcome! <br> Project Introductions<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|-<br />
|bgcolor="#ffffdd"|'''3:00pm-5:00pm'''<br />
|bgcolor="#ffffff"| 3:30pm: Breakout Session: Slicer Extensions<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|-<br />
|bgcolor="#ffffdd"|'''6:00pm'''<br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"| <br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"|<br />
|-<br />
|}<br />
<br />
='''Background'''=<br />
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.<br />
<br />
[[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. <br />
<br />
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.<br />
<br />
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].<br />
<br />
A summary of all previous Project Events is available [[Project_Events#Past|here]].<br />
<br />
This project week is an event [[Post-NCBC-2014|endorsed]] by the MICCAI society.<br />
<br />
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).<br />
<br />
Please make sure that you are on the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list].<br />
<br />
<br />
='''Equipment'''=<br />
*[[2016_Summer_Project_Week:Equipment|Specialized equipment people are going to bring]] (Please add to this list if you are bringing anything)<br />
*[[2016_Summer_Project_Week:Equipment_Requests|Specialized equipment that people would like to have]]<br />
<br />
='''Projects'''=<br />
* Use this [[2016_Summer_Project_Week_Template | template]] for project pages<br />
<br />
=== IGT ===<br />
* [[2016 Summer Project Week/OpenIGTLink Robotics | Integrating/Using OpenIGTLink for the communications of Robotics devices]] (Scheherazade Kraß)<br />
* [[2016 Summer Project Week/Needle Segmentation from MRI | Needle Segmentation from MRI]] (Tina Kapur, Andre Mastmeyer, Guillaume Pernelle)<br />
* [[2016 Summer Project Week/Guided Ultrasound Calibration | Guided Ultrasound Calibration]] (Elvis Chen)<br />
* [[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)<br />
* [[2016 Summer Project Week/PLUS integration in CustusX via OpenIGTLink | PLUS integration in CustusX via OpenIGTLink]] (Christian Askeland, Janne Beate Bakeng, Ole Vegard Solberg, Jon Eiesland)<br />
<br />
=== Infrastructure ===<br />
* [[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?)<br />
* [[2016 Summer Project Week/Segmentation Editor and Terminology | Segmentation Editor and Terminology]] (Nicole Aucoin, Andrey Fedorov, Csaba Pinter)<br />
* [[2016 Summer Project Week/Segmentations Integration | Integration of Segmentations infrastructure and related modules to Slicer core]] (Csaba Pinter, Andras Lasso)<br />
* [[2016 Summer Project Week/DICOM Parametric Maps | Finalizing DICOM Parametric Map implementation in DCMTK for QIICR project]] (Michael Onken, Jan Schlamelcher)<br />
* [[2016 Summer Project Week/DICOM Tractography Results | Finalizing DICOM Tractography Results implementation in DCMTK for BWH project]] (Michael Onken)<br />
<br />
=== Augmented Reality ===<br />
* [[2016 Summer Project Week/VRPN Integration | VRPN Integration]] (Dženan Zukić)<br />
* [[2016 Summer Project Week/OpenVR_integration | OpenVR Integration]] (Adam Rankin)<br />
<br />
=== Cloud ===<br />
* [[2016 Summer Project Week/medical imaging webapp | Medical Imaging WebApp Software]] (Steve Pieper, Marco Nolden, Hans Meine)<br />
<br />
= '''Registrants''' =<br />
<br />
'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html and then add your name to this list. DKFZ members who will only be attending Monday should only add their name to this list.<br />
<br />
#Tina Kapur, Brigham and Women's Hospital, Harvard Medical School (BWH/HMS), Boston, USA<br />
# Dženan Zukić, Kitware, USA<br />
# Ines Prata Machado, MIT Portugal Program (PhD Student), Lisbon, Portugal.<br />
# Sonia Pujol, Brigham and Women's Hospital, Harvard Medical School<br />
# Scheherazade Kraß, PhD Student, [http://www.uni-bremen.de/ University of Bremen], [http://www.mic.uni-bremen.de/ Medical Image Computing]group, Germany<br />
# Maria Francesca Spadea [http://www.imagenglab.com ImagEngLab], Italy<br />
# Paolo Zaffino [http://www.imagenglab.com ImagEngLab], Italy<br />
# Salvatore Scaramuzzino [http://www.imagenglab.com ImagEngLab], Italy<br />
# Steve Pieper, Isomics, Inc., USA<br />
# Nicole Aucoin, Brigham and Women's Hospital<br />
# Simon Drouin, Montreal Neurological Institute<br />
# Thomas Kirchner, German Cancer Research Center<br />
# Elvis Chen, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada<br />
# Adam Rankin, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada<br />
# Christian Askeland, SINTEF, Norway<br />
# Hans Meine, University of Bremen / Fraunhofer MEVIS, Germany<br />
# Longquan Chen, BWH/HMS, Boston, USA<br />
# Davide Punzo, Kapteyn Astronomical Institute, Netherlands<br />
# Lauren O'Donnell, BWH/HMS<br />
# Yannick Suter, BWH/HMS<br />
# Junichi Tokuda, BWH/HMS<br />
#Sarah Frisken, BWH/HMS<br />
#Prashin Unadkat, BWH/HMS<br />
#Anna Roethe, Charite, Berlin<br />
#Michael Onken, Open Connections, Germany<br />
#Jan Schlamelcher, Open Connections/OFFIS, Germany<br />
# Janne Beate Bakeng, SINTEF, Norway<br />
# Ole Vegard Solberg, SINTEF, Norway<br />
# Jon Eiesland, SINTEF, Norway<br />
# Tamas Ungi, Queen's University, Canada<br />
# Andras Lasso, Queen's University, Canada<br />
# Csaba Pinter, Queen's University, Canada<br />
# Thomas Vaughan, Queen's University, Canada</div>Ungihttps://www.na-mic.org/w/index.php?title=2016_Summer_Project_Week&diff=926682016 Summer Project Week2016-05-31T12:58:43Z<p>Ungi: /* Registrants */</p>
<hr />
<div>__NOTOC__<br />
<br />
[[image:PW-Summer2016.png|300px]]<br />
<br><br><br />
=Welcome to the web page for the 23rd Project Week!=<br />
The 23rd Project Week open source hackathon is being 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].<br />
<br />
='''Logistics'''=<br />
*'''Dates:''' Monday June 20th to Saturday June 25th, 2016, with one day break on Tuesday June 21st to attend IPCAI.<br />
*'''Location:''' Heidelberg, Germany.<br />
**'''Monday''' at German Cancer Research Center - DKFZ<br />
**'''Tuesday''' there is '''no''' organized Project Week activity due to IPCAI @ CARS<br />
**'''Wednesday-Saturday''' at the Congress Hall of CARS.<br />
*'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html<br />
*'''Registration Fee:''' Euro 650 (after April 26, 2016)<br />
*'''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.<br />
*Preparatory Conference Calls: <br />
**800-501-8979. The pin is 7327389. ([http://www.windstreambusiness.com/resources/user-guides/international-conferencing International dialing instructions are available here])<br />
**Call #1 Tuesday, May 10, 3pm Boston time.<br />
**Call #2 Tuesday, May 17, 3pm Boston time.<br />
**Call #3 Tuesday, May 31, 9am Boston time.<br />
**Call #4 Tuesday, Jun 7, 9am Boston time.<br />
**Call #5 Tuesday, Jun 14, 9am Boston time.<br />
<br />
='''Agenda'''=<br />
<font color="maroon">Please note that on '''Tuesday''' there is no organized Project Week activity due to IPCAI @ CARS</font><br />
{|border="1"<br />
|-style="background:#b0d5e6;color:#02186f"<br />
!style="width:7%" |Time<br />
!style="width:15%" |Monday, June 20 <br> DKFZ <br />
!style="width:3%" |Tuesday, June 21 <br> IPCAI<br />
!style="width:15%" |Wednesday, June 22 <br> Congress Hall of CARS<br />
!style="width:15%" |Thursday, June 23 <br> Congress Hall of CARS<br />
!style="width:15%" |Friday, June 24 <br> Congress Hall of CARS<br />
!style="width:15%" |Saturday, June 25 <br> Congress Hall of CARS<br />
|-<br />
|bgcolor="#ffffdd"|'''9:00am-12:00pm'''<br />
|bgcolor="#ffffff"| DKFZ Discussions<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|Breakout Session: Ultrasound Navigation<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| Progress Review<br />
|-<br />
|bgcolor="#ffffdd"|'''12:00pm-1:00pm'''<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch<br />
|bgcolor="#ffffaa"|Lunch and adjourn<br />
|-<br />
|bgcolor="#ffffdd"|'''1:00pm-3:00pm'''<br />
|bgcolor="#ffffff"| Welcome! <br> Project Introductions<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|-<br />
|bgcolor="#ffffdd"|'''3:00pm-5:00pm'''<br />
|bgcolor="#ffffff"| 3:30pm: Breakout Session: Slicer Extensions<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"|<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#ffffff"|<br />
|-<br />
|bgcolor="#ffffdd"|'''6:00pm'''<br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#ffffff"| <br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"| <br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"|<br />
|-<br />
|}<br />
<br />
='''Background'''=<br />
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.<br />
<br />
[[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. <br />
<br />
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.<br />
<br />
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].<br />
<br />
A summary of all previous Project Events is available [[Project_Events#Past|here]].<br />
<br />
This project week is an event [[Post-NCBC-2014|endorsed]] by the MICCAI society.<br />
<br />
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).<br />
<br />
Please make sure that you are on the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list].<br />
<br />
<br />
='''Equipment'''=<br />
*[[2016_Summer_Project_Week:Equipment|Specialized equipment people are going to bring]] (Please add to this list if you are bringing anything)<br />
*[[2016_Summer_Project_Week:Equipment_Requests|Specialized equipment that people would like to have]]<br />
<br />
='''Projects'''=<br />
* Use this [[2016_Summer_Project_Week_Template | template]] for project pages<br />
<br />
=== IGT ===<br />
* [[2016 Summer Project Week/OpenIGTLink Robotics | Integrating/Using OpenIGTLink for the communications of Robotics devices]] (Scheherazade Kraß)<br />
* [[2016 Summer Project Week/Needle Segmentation from MRI | Needle Segmentation from MRI]] (Tina Kapur, Andre Mastmeyer, Guillaume Pernelle)<br />
* [[2016 Summer Project Week/Guided Ultrasound Calibration | Guided Ultrasound Calibration]] (Elvis Chen)<br />
* [[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)<br />
* [[2016 Summer Project Week/PLUS integration in CustusX via OpenIGTLink | PLUS integration in CustusX via OpenIGTLink]] (Christian Askeland, Janne Beate Bakeng, Ole Vegard Solberg, Jon Eiesland)<br />
<br />
=== Infrastructure ===<br />
* [[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?)<br />
* [[2016 Summer Project Week/Segmentation Editor and Terminology | Segmentation Editor and Terminology]] (Nicole Aucoin, Andrey Fedorov, Csaba Pinter)<br />
* [[2016 Summer Project Week/Segmentations Integration | Integration of Segmentations infrastructure and related modules to Slicer core]] (Csaba Pinter, Andras Lasso)<br />
* [[2016 Summer Project Week/DICOM Parametric Maps | Finalizing DICOM Parametric Map implementation in DCMTK for QIICR project]] (Michael Onken, Jan Schlamelcher)<br />
* [[2016 Summer Project Week/DICOM Tractography Results | Finalizing DICOM Tractography Results implementation in DCMTK for BWH project]] (Michael Onken)<br />
<br />
=== Augmented Reality ===<br />
* [[2016 Summer Project Week/VRPN Integration | VRPN Integration]] (Dženan Zukić)<br />
* [[2016 Summer Project Week/OpenVR_integration | OpenVR Integration]] (Adam Rankin)<br />
<br />
=== Cloud ===<br />
* [[2016 Summer Project Week/medical imaging webapp | Medical Imaging WebApp Software]] (Steve Pieper, Marco Nolden, Hans Meine)<br />
<br />
= '''Registrants''' =<br />
<br />
'''REGISTRATION:''' Please register for the CARS conference at http://www.cars-int.org/cars_2016/registration.html and then add your name to this list. DKFZ members who will only be attending Monday should only add their name to this list.<br />
<br />
#Tina Kapur, Brigham and Women's Hospital, Harvard Medical School (BWH/HMS), Boston, USA<br />
# Dženan Zukić, Kitware, USA<br />
# Ines Prata Machado, MIT Portugal Program (PhD Student), Lisbon, Portugal.<br />
# Sonia Pujol, Brigham and Women's Hospital, Harvard Medical School<br />
# Scheherazade Kraß, PhD Student, [http://www.uni-bremen.de/ University of Bremen], [http://www.mic.uni-bremen.de/ Medical Image Computing]group, Germany<br />
# Maria Francesca Spadea [http://www.imagenglab.com ImagEngLab], Italy<br />
# Paolo Zaffino [http://www.imagenglab.com ImagEngLab], Italy<br />
# Salvatore Scaramuzzino [http://www.imagenglab.com ImagEngLab], Italy<br />
# Steve Pieper, Isomics, Inc., USA<br />
# Nicole Aucoin, Brigham and Women's Hospital<br />
# Simon Drouin, Montreal Neurological Institute<br />
# Thomas Kirchner, German Cancer Research Center<br />
# Elvis Chen, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada<br />
# Adam Rankin, [http://www.imaging.robarts.ca/petergrp/Research Robarts Research Institute], Canada<br />
# Christian Askeland, SINTEF, Norway<br />
# Hans Meine, University of Bremen / Fraunhofer MEVIS, Germany<br />
# Longquan Chen, BWH/HMS, Boston, USA<br />
# Davide Punzo, Kapteyn Astronomical Institute, Netherlands<br />
# Lauren O'Donnell, BWH/HMS<br />
# Yannick Suter, BWH/HMS<br />
# Junichi Tokuda, BWH/HMS<br />
#Sarah Frisken, BWH/HMS<br />
#Prashin Unadkat, BWH/HMS<br />
#Anna Roethe, Charite, Berlin<br />
#Michael Onken, Open Connections, Germany<br />
#Jan Schlamelcher, Open Connections/OFFIS, Germany<br />
# Janne Beate Bakeng, SINTEF, Norway<br />
# Ole Vegard Solberg, SINTEF, Norway<br />
# Jon Eiesland, SINTEF, Norway<br />
# Tamas Ungi, Queen's University, Canada</div>Ungihttps://www.na-mic.org/w/index.php?title=2015_Summer_Project_Week:SlicerIGT&diff=900472015 Summer Project Week:SlicerIGT2015-06-24T15:07:20Z<p>Ungi: /* Project Description */</p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2015.png|[[2015_Summer_Project_Week#Projects|Projects List]]<br />
Image:SlicerIGTLogo.png|SlicerIGT extension logo.<br />
Image:LumpNav-Touchscreen.png|Breast tumor surgery navigation using SlicerIGT.<br />
</gallery><br />
<br />
==Key Investigators==<br />
<br />
* Tamas Ungi, Andras Lasso (Queen's University, Kingsotn, ON, Canada)<br />
* Junichi Tokuda (BWH)<br />
* Stephen Aylward (Kitware)<br />
* Steve Pieper (Isomics, Boston, MA, USA)<br />
* Jayender Jagadeesan (BWH)<br />
* Alvaro Gomez (Universidad de la Republica, Uruguay)<br />
* Javier Pascau (Universidad Carlos III de Madrid)<br />
* Caroline Essert (Universite de Strasbourg)<br />
* Adam Rankin (Western University, London, ON, Cadana)<br />
* Nobuhiko Hata (BWH)<br />
* Tina Kapur (BWH)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* SlicerIGT is an extension with modules that allow application prototyping for real time tracked and navigated medical procedures.<br />
* Improve tutorials on the [http://www.slicerigt.org SlicerIGT] website.<br />
** Collect use cases and add tutorials of common tasks in image-guided interventions.<br />
*** E.g. tracked Telemed ultrasound use case<br />
** Define a set of tutorials for MICCAI that can be executed with real hardware on all platforms.<br />
* Add auto-tests to SlicerIGT modules.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Meet with current and prospective users of SlicerIGT to learn use cases and needs.<br />
* Create tutorials that use the Multidimensional Data module for playback of recorded image-guided interventions.<br />
<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
We will use multi-level tutorials.<br />
* Screencast<br />
* Harry Potter style<br />
* Slides, etc.<br />
Requests for next version of tutorial:<br />
* Introductory tutorial to explain what really PLUS is, what is the scope of tools, how do they work together.<br />
* Surgical viewpoint setup for 3D navigation.<br />
* Trajectory (needle) planning and visualization.<br />
* Progress visualization relative to trajectory plan.<br />
* OCT volume reconstruction (get sample data).<br />
* Developer tutorials about high level architecture.<br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2015_Summer_Project_Week:SlicerIGT&diff=900442015 Summer Project Week:SlicerIGT2015-06-24T15:04:43Z<p>Ungi: /* Project Description */</p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2015.png|[[2015_Summer_Project_Week#Projects|Projects List]]<br />
Image:SlicerIGTLogo.png|SlicerIGT extension logo.<br />
Image:LumpNav-Touchscreen.png|Breast tumor surgery navigation using SlicerIGT.<br />
</gallery><br />
<br />
==Key Investigators==<br />
<br />
* Tamas Ungi, Andras Lasso (Queen's University, Kingsotn, ON, Canada)<br />
* Junichi Tokuda (BWH)<br />
* Stephen Aylward (Kitware)<br />
* Steve Pieper (Isomics, Boston, MA, USA)<br />
* Jayender Jagadeesan (BWH)<br />
* Alvaro Gomez (Universidad de la Republica, Uruguay)<br />
* Javier Pascau (Universidad Carlos III de Madrid)<br />
* Caroline Essert (Universite de Strasbourg)<br />
* Adam Rankin (Western University, London, ON, Cadana)<br />
* Nobuhiko Hata (BWH)<br />
* Tina Kapur (BWH)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* SlicerIGT is an extension with modules that allow application prototyping for real time tracked and navigated medical procedures.<br />
* Improve tutorials on the [http://www.slicerigt.org SlicerIGT] website.<br />
** Collect use cases and add tutorials of common tasks in image-guided interventions.<br />
*** E.g. tracked Telemed ultrasound use case<br />
** Define a set of tutorials for MICCAI that can be executed with real hardware on all platforms.<br />
* Add auto-tests to SlicerIGT modules.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Meet with current and prospective users of SlicerIGT to learn use cases and needs.<br />
* Create tutorials that use the Multidimensional Data module for playback of recorded image-guided interventions.<br />
<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
Use multi-level tutorials. Screencast, Harry Potter style, slides, etc.<br />
Requests for next version of tutorial:<br />
* Introductory tutorial to explain what really PLUS is, what is the scope of tools, how do they work together.<br />
* Surgical viewpoint setup for 3D navigation.<br />
* Trajectory (needle) planning and visualization.<br />
* Progress visualization relative to trajectory plan.<br />
* OCT volume reconstruction (get sample data).<br />
* Developer tutorials about high level architecture.<br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2015_Summer_Project_Week:SlicerIGT&diff=900402015 Summer Project Week:SlicerIGT2015-06-24T15:03:48Z<p>Ungi: /* Key Investigators */</p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2015.png|[[2015_Summer_Project_Week#Projects|Projects List]]<br />
Image:SlicerIGTLogo.png|SlicerIGT extension logo.<br />
Image:LumpNav-Touchscreen.png|Breast tumor surgery navigation using SlicerIGT.<br />
</gallery><br />
<br />
==Key Investigators==<br />
<br />
* Tamas Ungi, Andras Lasso (Queen's University, Kingsotn, ON, Canada)<br />
* Junichi Tokuda (BWH)<br />
* Stephen Aylward (Kitware)<br />
* Steve Pieper (Isomics, Boston, MA, USA)<br />
* Jayender Jagadeesan (BWH)<br />
* Alvaro Gomez (Universidad de la Republica, Uruguay)<br />
* Javier Pascau (Universidad Carlos III de Madrid)<br />
* Caroline Essert (Universite de Strasbourg)<br />
* Adam Rankin (Western University, London, ON, Cadana)<br />
* Nobuhiko Hata (BWH)<br />
* Tina Kapur (BWH)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* SlicerIGT is an extension with modules that allow application prototyping for real time tracked and navigated medical procedures.<br />
* Improve tutorials on the [http://www.slicerigt.org SlicerIGT] website.<br />
** Collect use cases and add tutorials of common tasks in image-guided interventions.<br />
*** E.g. tracked Telemed ultrasound use case<br />
** Define a set of tutorials for MICCAI that can be executed with real hardware on all platforms.<br />
* Add auto-tests to SlicerIGT modules.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Meet with current and prospective users of SlicerIGT to learn use cases and needs.<br />
* Create tutorials that use the Multidimensional Data module for playback of recorded image-guided interventions.<br />
<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
Requests for next version of tutorial:<br />
* Introductory tutorial to explain what really PLUS is, what is the scope of tools, how do they work together.<br />
* Surgical viewpoint setup for 3D navigation.<br />
* Trajectory (needle) planning and visualization.<br />
* Progress visualization relative to trajectory plan.<br />
* OCT volume reconstruction (get sample data).<br />
* Developer tutorials about high level architecture.<br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2015_Summer_Project_Week&diff=900392015 Summer Project Week2015-06-24T15:03:31Z<p>Ungi: /* Image-Guided Therapy */</p>
<hr />
<div>__NOTOC__<br />
<br />
[[image:PW-Summer2015.png|300px]]<br />
<br><br />
<br />
<br />
<br />
'''Welcome to the web page for the 21st Project Week! This is the first Project Week that is being held in conjunction with the [http://www.cars-int.org/ CARS conference].'''<br />
<br />
==Logistics==<br />
<br />
*'''Dates:''' June 21-24, 2015.<br />
*'''Location:''' [http://www.nh-collection.com/hotel/nh-collection-barcelona-constanza NH Collection Constanza Hotel, Barcelona, Spain]<br />
*'''REGISTRATION:''' Please register by adding your name to the list at the end of this page<br />
*'''Registration Fee:''' None. The organizers will cover the charge for the conference room, while all attendees are responsible for their own hotel rooms as well as food.<br />
*'''Hotel:''' You are welcome to book a room using the CARS 2015 conference services ([http://www.cars-int.org/fileadmin/templates/download/2015/CARS_2015_accomondation.pdf Click here for form])<br />
*To attend the CARS meeting, please visit [http://www.cars-int.org/ http://www.cars-int.org/]<br />
*Premium Network at Berlin Room: <br />
**username: EVENT/CARS2015<br />
**Password=CARS<br />
<br />
*Please get a badge for CARS, even if you did not register for the CARS conference. Otherwise you will not be able to come in tomorrow.<br />
<br />
==Agenda==<br />
<br />
{|border="1"<br />
|-style="background:#b0d5e6;color:#02186f" <br />
!style="width:10%" |Time<br />
!style="width:18%" |Sunday, June 21 <br />
!style="width:18%" |Monday, June 22 <br> Room Berlin <br />
!style="width:18%" |Tuesday, June 23 <br> Room Berlin <br />
!style="width:18%" |Wednesday, June 24 <br> Room Berlin <br />
|-<br />
|bgcolor="#ffffdd"|'''9:00am-3:00pm:'''<br />
|rowspan=3 valign=bottom|<hr>'''6pm''' Meeting with All Participants in Hotel Constanza Lobby<br />
|'''10:00-11am:''' <font color="#503020">Rapid Introduction of all Projects and Teams <br><br />
'''11am-3pm''' <font color="#503020">Work <br><br />
<br />
|<br />
'''10:00am-11am:''' <font color="#503020">'''Breakout Session:'''</font> - <br>[[2014_Project_Week_Breakout_Session: Slicer for users| Ask expert physicians]] (Ron Kikinis, Clare Tempany) <br><br />
'''11am-3pm''' <font color="#503020">Work<br />
| <font color="#503020">Work <br><br />
|-<br />
|bgcolor="#ffffdd"|'''1:00pm-3:00pm'''<br />
|bgcolor="#ffffaa"|Lunch <br> [[Barcelona Restaurants|Places to Eat]] <br />
|bgcolor="#ffffaa"|Lunch<br> [[Barcelona Restaurants|Places to Eat]] <br />
|bgcolor="#ffffaa"|Lunch<br> [[Barcelona Restaurants|Places to Eat]] <br />
|-<br />
|bgcolor="#ffffdd"|'''4:00-7:00pm'''<br />
|<font color="#503020"> Work<br />
|'''5:00-7:00pm:''' <font color="#503020">'''Breakout Session:'''</font><br>[[2015_Summer_Project_Week/SoftwareStack| Open Software Stack]] (Steve Pieper) <br>4pm-6pm: Registration Desk Open for CARS attendees. Please pick up badges. <br><br />
|'''4:00-5:00pm:''' <font color="#503020"> Work <br><br />
'''4:30-6pm:''' Report Progress<br />
|-<br />
|bgcolor="#ffffdd"|'''7:00pm'''<br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"|Adjourn for the day <br> [[Barcelona Restaurants|Places to Eat]] <br />
|bgcolor="#f0e68b"|Adjourn for the day <br> [http://www.barcelona-tourist-guide.com/en/events/sant-joan/feast-sant-joan.html Sant Joan Festival]<br />
|bgcolor="#f0e68b"|'''6:00pm''' Adjourn Project Week and relocate to CARS Opening<br> '''7:30pm''' CARS Welcome Reception <br />
|}<br />
<br />
*Please note that start, end, and mealtimes have been set to match local schedules in Barcelona.<br />
*Here is a list of [[Barcelona Restaurants | locally recommended places to eat]] in the vicinity of the conference hotel. All participants are responsible for their own meals.<br />
<br />
== '''Background''' ==<br />
<br />
<br />
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. <br />
<br />
[[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. <br />
<br />
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.<br />
<br />
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]. <br />
<br />
A summary of all previous Project Events is available [[Project_Events#Past|here]].<br />
<br />
This project week is an event [[Post-NCBC-2014|endorsed]] by the MICCAI society.<br />
<br />
The 21st Project Week is being held on conjunction with the [http://www.cars-int.org/ CARS conference].<br />
<br />
Please make sure that you are on the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list]<br />
<br />
=Projects=<br />
* [[2015_Summer_Project_Week_Template | Template for project pages]]<br />
<br />
<br />
==Equipment==<br />
<br />
*[[2015_Summer_Project_Week:Equipment|Specialized equipment people are going to bring]] (Please add to this list if you are bringing anything)<br />
<br />
==Image-Guided Therapy==<br />
*[[2015_Summer_Project_Week:SlicerIGT|SlicerIGT tutorials for use cases]] (Tamas, Andras, Jay, Steve, Alvaro, Javier, Adam, Caroline, Noby, Tina)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_Refinement_Registration_Module Refinement of RegistrationModule] (Peter Behringer, Andrey Fedorov)<br />
*[[2015_Summer_Project_Week:IGTSliceletBase| Create base classes for IGT slicelet]] (Andras Lasso, Andrey Fedorov, Adam Rankin)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_BRAINSFit_registration_in_SimpleITK BRAINSFit registration in SimpleITK] (Peter Behringer, Andrey Fedorov, Dženan Zukić)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_Multi_atlas_based_prostate_segmentation Multi atlas based prostate segmentation] (Paolo Zaffino, Giampaolo Pileggi, Salvatore Scaramuzzino, Peter Behringer, Andrey Fedorov, Maria Francesca Spadea)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_Multimodal_Guidance_for_Breast_Cancer_Surgery Multimodal Guidance for Breast Cancer Surgery] (Mikael Brudfors, David García, Javier Pascau)<br />
*[[2015_pilot trajectory planning | Pilot Trajectory Planning(Caroline Essert, Sonia Pujol)]]<br />
*[[2015_Summer_Project_Week:LinearFeatureRegistration|Linear Feature Registration]] (Matthew Holden)<br />
*[[2015_Summer_Project_Week:LightWeightRobotIGT | Integration of a KUKA robot using OpenIGTLink ]] (Sebastian Tauscher, Junichi Tokuda)<br />
*[[2015_Summer_Project_Week:USReconstruction | Gated 3D Ultrasound Reconstructions with the Help of a Single-Element US Transducer ]] (Frank Preiswerk, Laurent Chauvin)<br />
*[[2015 Orthognathic Surgery|Orthognathic Surgery]] (Dženan Zukić, Kitware)<br />
*[[2015_Summer_Project_Week:SlicerTAVI | SlicerTAVI ]] (Adam Rankin)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_pyDBS pyDBS module update to Slicer4.4 (Sara Fernandez-Vidal, Yulong Zhao, Sonia Pujol)]<br />
*[[2015_Summer_Project_Week:OpenSource_MRTRUS_Fusion_for_Prostate_biopsy|Open-source MRI-TRUS Fusion for Prostate biopsy]] (Andrey Fedorov, Andras Lasso, Clare Tempany)<br />
*[[2015_Summer_Project_Week:TrackerlessMRIUSFusion | Trackerless MRI - US Registration ]] (Utsav Pardasani)<br />
*[[2015_Summer_Project_Week:SordinaLinacPath | Sordina LINAC Guidance ]] (Eugenio Marinetto)<br />
<br />
==Feature Based Image Analysis==<br />
*[[2015_Summer_Project_Week:LungCAD| LungCAD]] (Jayender Jagadeesan, Tobias Penzkofer, Sandy Wells, Clara Meinzer)<br />
*[[2015_Summer_Project_Week:QuantitativeProstate | Texture Analysis for Prostate Imaging]] (Tobias Penzkofer, Jay Jagadeesan, Matthew Toews, Tina Kapur)<br />
*[[2015_Summer_Project_Week:BigDataFeatures | Big Data Medical Image Analysis using Local Features]] (Matthew Toews, William Wells, Raul San Jose Estepar, Tina Kapur)<br />
*[[2015_Summer_Project_Week:AutomaticCephalometric | Automatic Cephalometric Analysis ]] (J. Jesus Montufar, Marcelo Romero)<br />
<br />
==Chest Imaging Platform==<br />
*[[2015_Summer_Project_Week:Slicer_CIP | Slicer CIP: advanced features and deployment ]] (Raúl San José, Alex Yarmarkovich, Jorge Onieva)<br />
*[[2015_Summer_Project_Week:PAA_Ratio | PAA Ratio Module ]] (Jorge Onieva,Raúl San José)<br />
*[[2015_Summer_Project_Week:Tracheal_Stent_Planning | Planning for tracheal stents ]] (Raúl San José, Jorge Onieva, George Cheng)<br />
*[[2015_Summer_Project_Week:Atelectasis_Quantification | Volumetric Quantification of Atelectasis ]] (Ángel Torrado-Carvajal, Carolina Romero, Norberto Malpica)<br />
<br />
==QIICR==<br />
*[[2015_Summer_Project_Week:DSC | Dynamic Susceptibility Contrast (DSC) MRI for brain ]] (Xiao Da, Yangming Ou, Andriy Fedorov, Steve Pieper, Jayashree Kalpathy-Cramer)<br />
*[[2015_Summer_Project_Week:T1 mapping | T1 mapping for Dynamic Contrast Enhanced (DCE) MRI ]] (Xiao Da, Yangming Ou, Andriy Fedorov, Jayashree Kalpathy-Cramer)<br />
*[[2015_Summer_Project_Week:DCMTK| Integration and testing of new DCMTK with Slicer]] (Michael Onken, Andrey Fedorov, Steve Pieper)<br />
<br />
==Infrastructure==<br />
*[[2015_Summer_Project_Week:Return_Fiducials_from_CLIs | Return fiducials from CLIs]] (Nicole Aucoin,Hans Meine)<br />
*[[2015_Summer_Project_Week:Integrated Virtual Reality Viewer | Integrated Virtual Reality Viewer]] (Franklin King, Utsav Pardasani)<br />
*[[2015_Summer_Project_Week:SegmentationNode| Use new Segmentation node in Editor]] (Andras Lasso, Steve Pieper)<br />
*[[2015_Summer_Project_Week:Slicer_Conda | Integrate Conda Python in Slicer]] (Jorge Onieva, Raúl San José, Utsav Pardasani, Steve Pieper)<br />
<br />
==Web==<br />
*[[2015_Summer_Project_Week:Dicom parsing with DCMJS | Dicom parsing with DCMJS]] (Nicolas Rannou, Michael Onken, Steve Pieper)<br />
*[[2015_Summer_Project_Week:Volume rendering with DCMJS and THREEJS | Volume Rendering with DCMJS and THREEJS]] (Nicolas Rannou, Steve Pieper)<br />
*[[2015_Summer_Project_Week:CTK for the web and touch devices| CTK for the web and touch devices]] (Nicolas Rannou, Yves Martelli, Steve Pieper)<br />
*[[2015_Summer_Project_Week:SlicerCardboard| Slicer for mobile-based vr goggles]] (Utsav Pardasani, Adam Rankin)<br />
*[[2015_Summer_Project_Week:PythonDevelopmentTutorial | Python developer tutorial]] (Adam Rankin)<br />
<br />
==Astronomy==<br />
*[[2015_Summer_Project_Week:Astronomy | Visualization of HI in galaxies]] (Davide Punzo)<br />
<br />
== '''Registrants''' ==<br />
<br />
Please add your name to the list. This is the registration mechanism for this project week.<br />
#Tina Kapur, BWH<br />
#Ron Kikinis, BWH & Fraunhofer<br />
#Steve Pieper, Isomics<br />
#Tamas Ungi, Queen's University, Canada<br />
#Andras Lasso, Queen's University, Canada<br />
#Paolo Zaffino, ImagEngLab, Magna Graecia University, Italy<br />
#Salvatore Scaramuzzino, ImagEngLab, Magna Graecia University, Italy<br />
#Giampaolo Pileggi, ImagEngLab, Magna Graecia University, Italy<br />
#Nicole Aucoin, BWH<br />
#Sonia Pujol, BWH<br />
#Dženan Zukić, Kitware, Carrboro, NC<br />
#Jayender Jagadeesan, BWH<br />
#Guido Gerig, Utah<br />
#Sandy Wells, BWH<br />
#Matthew Toews, École de Technologie Supérieure, Montreal, Canada<br />
#Frank Preiswerk, BWH<br />
#Raul San Jose, BWH<br />
#Jorge Onieva, BWH<br />
#Yulong Zhao, Université de Rennes<br />
#Laurent Chauvin, BWH<br />
#Michael Onken, Open Connections<br />
#Tobias Penzkofer, Department of Radiology, Charité Berlin, Germany<br />
#Javier Pascau, Universidad Carlos III de Madrid, Spain<br />
#Angel Torrado-Carvajal, Universidad Rey Juan Carlos, Madrid, Spain<br />
#Nobuhiko Hata, BWH<br />
#Robert H. Owen, BK Medical ApS, Denmark<br />
#Clare Tempany, BWH<br />
#Adam Rankin, Robarts<br />
#Utsav Pardasani, Robarts<br />
#Marcelo Romero, Facultad de Ingenieria, Universidad Autonoma del Estado de Mexico, Mexico<br />
#J. Jesus Montufar, Facultad de Ingenieria, Universidad Autonoma del Estado de Mexico, Mexico<br />
#Davide Punzo, Kapteyn Astronomical Institute, University of Groningen, Netherlands<br />
#Andrey Fedorov, BWH<br />
#Nicolas Rannou, BCH<br />
#Mikael Brudfors, Universidad Carlos III de Madrid, Spain<br />
#Laura Sanz, Universidad Carlos III de Madrid, Spain<br />
#Eugenio Marinetto, Universidad Carlos III de Madrid, Spain<br />
#David García, Universidad Carlos III de Madrid, Spain<br />
#Franklin King, Queen's University / BWH<br />
#Jorge García, Universidad Politécnica de Madrid, Spain<br />
#Peter Behringer, BWH<br />
#Caroline Essert, University of Strasbourg<br />
#Sebastian Tauscher, Institute of Mechatronic Systems, Leibniz Universität Hannover, Germany<br />
#Matthew Holden, Queen's University, Canada<br />
#Sara Fernandez Vidal, ICM, France<br />
#Laszlo Kanyasi, Perk Lab affiliate, Hungary<br />
#Xiao Da, MGH<br />
#Arnaud De Bruecker, École supérieure d'informatique, Brussels, Belgium<br />
#Ali Gottschalk, École supérieure d'informatique, Brussels, Belgium<br />
#Christophe Teixeira Pereira, École supérieure d'informatique, Brussels, Belgium<br />
#Tsotne Shonia, École supérieure d'informatique, Brussels, Belgium<br />
#Clara Meinzer, Semmelweis University, Hungary<br />
#Yves Martelli, Galgo Medical, Barcelona, Spain<br />
#Alvaro Gomez (Universidad de la Republica, Uruguay)<br />
#Alfredo Higueras, Galgo Medical, Barcelona, Spain</div>Ungihttps://www.na-mic.org/w/index.php?title=2015_Summer_Project_Week:SlicerIGT&diff=899322015 Summer Project Week:SlicerIGT2015-06-24T13:34:11Z<p>Ungi: /* Project Description */</p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2015.png|[[2015_Summer_Project_Week#Projects|Projects List]]<br />
Image:SlicerIGTLogo.png|SlicerIGT extension logo.<br />
Image:LumpNav-Touchscreen.png|Breast tumor surgery navigation using SlicerIGT.<br />
</gallery><br />
<br />
==Key Investigators==<br />
<br />
* Tamas Ungi, Andras Lasso (Queen's University, Kingsotn, ON, Canada)<br />
* Junichi Tokuda (BWH)<br />
* Stephen Aylward (Kitware)<br />
* Steve Pieper (Isomics, Boston, MA, USA)<br />
* Jayender Jagadeesan (BWH)<br />
* Alvaro Gomez (Universidad de la Republica, Uruguay)<br />
* Javier Pascau (Universidad Carlos III de Madrid)<br />
* Caroline Essert (Universite de Strasbourg)<br />
* Adam Rankin (Western University, London, ON, Cadana)<br />
* Nobuhiko Hata (BWH)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* SlicerIGT is an extension with modules that allow application prototyping for real time tracked and navigated medical procedures.<br />
* Improve tutorials on the [http://www.slicerigt.org SlicerIGT] website.<br />
** Collect use cases and add tutorials of common tasks in image-guided interventions.<br />
*** E.g. tracked Telemed ultrasound use case<br />
** Define a set of tutorials for MICCAI that can be executed with real hardware on all platforms.<br />
* Add auto-tests to SlicerIGT modules.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Meet with current and prospective users of SlicerIGT to learn use cases and needs.<br />
* Create tutorials that use the Multidimensional Data module for playback of recorded image-guided interventions.<br />
<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
Requests for next version of tutorial:<br />
* Introductory tutorial to explain what really PLUS is, what is the scope of tools, how do they work together.<br />
* Surgical viewpoint setup for 3D navigation.<br />
* Trajectory (needle) planning and visualization.<br />
* Progress visualization relative to trajectory plan.<br />
* OCT volume reconstruction (get sample data).<br />
* Developer tutorials about high level architecture.<br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2015_Summer_Project_Week:SlicerIGT&diff=899312015 Summer Project Week:SlicerIGT2015-06-24T13:33:04Z<p>Ungi: /* Project Description */</p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2015.png|[[2015_Summer_Project_Week#Projects|Projects List]]<br />
Image:SlicerIGTLogo.png|SlicerIGT extension logo.<br />
Image:LumpNav-Touchscreen.png|Breast tumor surgery navigation using SlicerIGT.<br />
</gallery><br />
<br />
==Key Investigators==<br />
<br />
* Tamas Ungi, Andras Lasso (Queen's University, Kingsotn, ON, Canada)<br />
* Junichi Tokuda (BWH)<br />
* Stephen Aylward (Kitware)<br />
* Steve Pieper (Isomics, Boston, MA, USA)<br />
* Jayender Jagadeesan (BWH)<br />
* Alvaro Gomez (Universidad de la Republica, Uruguay)<br />
* Javier Pascau (Universidad Carlos III de Madrid)<br />
* Caroline Essert (Universite de Strasbourg)<br />
* Adam Rankin (Western University, London, ON, Cadana)<br />
* Nobuhiko Hata (BWH)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* SlicerIGT is an extension with modules that allow application prototyping for real time tracked and navigated medical procedures.<br />
* Improve tutorials on the [http://www.slicerigt.org SlicerIGT] website.<br />
** Collect use cases and add tutorials of common tasks in image-guided interventions.<br />
*** E.g. tracked Telemed ultrasound use case<br />
** Define a set of tutorials for MICCAI that can be executed with real hardware on all platforms.<br />
* Add auto-tests to SlicerIGT modules.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Meet with current and prospective users of SlicerIGT to learn use cases and needs.<br />
* Create tutorials that use the Multidimensional Data module for playback of recorded image-guided interventions.<br />
<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
Requests for next version of tutorial:<br />
* Surgical viewpoint setup for 3D navigation.<br />
* Trajectory (needle) planning and visualization.<br />
* Progress visualization relative to trajectory plan.<br />
* OCT volume reconstruction (get sample data).<br />
* Developer tutorials about high level architecture.<br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2015_Summer_Project_Week:SlicerIGT&diff=899302015 Summer Project Week:SlicerIGT2015-06-24T13:25:14Z<p>Ungi: /* Project Description */</p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2015.png|[[2015_Summer_Project_Week#Projects|Projects List]]<br />
Image:SlicerIGTLogo.png|SlicerIGT extension logo.<br />
Image:LumpNav-Touchscreen.png|Breast tumor surgery navigation using SlicerIGT.<br />
</gallery><br />
<br />
==Key Investigators==<br />
<br />
* Tamas Ungi, Andras Lasso (Queen's University, Kingsotn, ON, Canada)<br />
* Junichi Tokuda (BWH)<br />
* Stephen Aylward (Kitware)<br />
* Steve Pieper (Isomics, Boston, MA, USA)<br />
* Jayender Jagadeesan (BWH)<br />
* Alvaro Gomez (Universidad de la Republica, Uruguay)<br />
* Javier Pascau (Universidad Carlos III de Madrid)<br />
* Caroline Essert (Universite de Strasbourg)<br />
* Adam Rankin (Western University, London, ON, Cadana)<br />
* Nobuhiko Hata (BWH)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* SlicerIGT is an extension with modules that allow application prototyping for real time tracked and navigated medical procedures.<br />
* Improve tutorials on the [http://www.slicerigt.org SlicerIGT] website.<br />
** Collect use cases and add tutorials of common tasks in image-guided interventions.<br />
*** E.g. tracked Telemed ultrasound use case<br />
** Define a set of tutorials for MICCAI that can be executed with real hardware on all platforms.<br />
* Add auto-tests to SlicerIGT modules.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Meet with current and prospective users of SlicerIGT to learn use cases and needs.<br />
* Create tutorials that use the Multidimensional Data module for playback of recorded image-guided interventions.<br />
<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
Requests for next version of tutorial:<br />
* Surgical viewpoint setup for 3D navigation.<br />
* Trajectory (needle) planning and visualization.<br />
* Progress visualization relative to trajectory plan.<br />
* OCT volume reconstruction (get sample data).<br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2015_Summer_Project_Week:SlicerIGT&diff=899292015 Summer Project Week:SlicerIGT2015-06-24T13:24:38Z<p>Ungi: /* Project Description */</p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2015.png|[[2015_Summer_Project_Week#Projects|Projects List]]<br />
Image:SlicerIGTLogo.png|SlicerIGT extension logo.<br />
Image:LumpNav-Touchscreen.png|Breast tumor surgery navigation using SlicerIGT.<br />
</gallery><br />
<br />
==Key Investigators==<br />
<br />
* Tamas Ungi, Andras Lasso (Queen's University, Kingsotn, ON, Canada)<br />
* Junichi Tokuda (BWH)<br />
* Stephen Aylward (Kitware)<br />
* Steve Pieper (Isomics, Boston, MA, USA)<br />
* Jayender Jagadeesan (BWH)<br />
* Alvaro Gomez (Universidad de la Republica, Uruguay)<br />
* Javier Pascau (Universidad Carlos III de Madrid)<br />
* Caroline Essert (Universite de Strasbourg)<br />
* Adam Rankin (Western University, London, ON, Cadana)<br />
* Nobuhiko Hata (BWH)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* SlicerIGT is an extension with modules that allow application prototyping for real time tracked and navigated medical procedures.<br />
* Improve tutorials on the [http://www.slicerigt.org SlicerIGT] website.<br />
** Collect use cases and add tutorials of common tasks in image-guided interventions.<br />
*** E.g. tracked Telemed ultrasound use case<br />
** Define a set of tutorials for MICCAI that can be executed with real hardware on all platforms.<br />
* Add auto-tests to SlicerIGT modules.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Meet with current and prospective users of SlicerIGT to learn use cases and needs.<br />
* Create tutorials that use the Multidimensional Data module for playback of recorded image-guided interventions.<br />
<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* Surgical viewpoint setup for 3D navigation.<br />
* Trajectory (needle) planning and visualization.<br />
* Progress visualization relative to trajectory plan.<br />
* OCT volume reconstruction (get sample data).<br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2015_Summer_Project_Week&diff=897652015 Summer Project Week2015-06-22T09:23:22Z<p>Ungi: /* Image-Guided Therapy */</p>
<hr />
<div>__NOTOC__<br />
<br />
[[image:PW-Summer2015.png|300px]]<br />
<br><br />
<br />
<br />
<br />
'''Welcome to the web page for the 21st Project Week! This is the first Project Week that is being held in conjunction with the [http://www.cars-int.org/ CARS conference].'''<br />
<br />
==Logistics==<br />
<br />
*'''Dates:''' June 21-24, 2015.<br />
*'''Location:''' [http://www.nh-collection.com/hotel/nh-collection-barcelona-constanza NH Collection Constanza Hotel, Barcelona, Spain]<br />
*'''REGISTRATION:''' Please register by adding your name to the list at the end of this page<br />
*'''Registration Fee:''' None. The organizers will cover the charge for the conference room, while all attendees are responsible for their own hotel rooms as well as food.<br />
*'''Hotel:''' You are welcome to book a room using the CARS 2015 conference services ([http://www.cars-int.org/fileadmin/templates/download/2015/CARS_2015_accomondation.pdf Click here for form])<br />
*To attend the CARS meeting, please visit [http://www.cars-int.org/ http://www.cars-int.org/]<br />
<br />
==Agenda==<br />
<br />
{|border="1"<br />
|-style="background:#b0d5e6;color:#02186f" <br />
!style="width:10%" |Time<br />
!style="width:18%" |Sunday, June 21 <br />
!style="width:18%" |Monday, June 22 <br> Room Berlin <br />
!style="width:18%" |Tuesday, June 23 <br> Room Berlin <br />
!style="width:18%" |Wednesday, June 24 <br> Room Berlin <br />
|-<br />
|bgcolor="#ffffdd"|'''9:00am-3:00pm:'''<br />
|rowspan=3 valign=bottom|<hr>'''6pm''' Meeting with All Participants in Hotel Constanza Lobby<br />
|'''10:00-11am:''' <font color="#503020">Rapid Introduction of all Projects and Teams <br><br />
'''11am-3pm''' <font color="#503020">Work <br><br />
<br />
|<br />
'''10:00am-11am:''' <font color="#503020">'''Breakout Session:'''</font><br>[[2014_Project_Week_Breakout_Session: Slicer for users| Slicer for users]] (Ron Kikinis) <br><br />
'''11am-3pm''' <font color="#503020">Work<br />
| <font color="#503020">Work <br><br />
|-<br />
|bgcolor="#ffffdd"|'''2:00pm-4:00pm'''<br />
|bgcolor="#ffffaa"|Lunch <br> [[Barcelona Restaurants|Places to Eat]] <br />
|bgcolor="#ffffaa"|Lunch<br> [[Barcelona Restaurants|Places to Eat]] <br />
|bgcolor="#ffffaa"|Lunch<br> [[Barcelona Restaurants|Places to Eat]] <br />
|-<br />
|bgcolor="#ffffdd"|'''4:00-7:00pm'''<br />
|<font color="#503020"> Work<br />
|'''5:00-7:00pm:''' <font color="#503020">'''Breakout Session:'''</font><br>[[2015_Summer_Project_Week/SoftwareStack| Open Software Stack]] (Steve Pieper) <br>4pm-6pm: Registration Desk Open for CARS attendees. Please pick up badges. <br><br />
|'''4:00-5:00pm:''' <font color="#503020"> Work <br><br />
'''5:00-6pm:''' Report Progress<br />
|-<br />
|bgcolor="#ffffdd"|'''7:00pm'''<br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"|Adjourn for the day <br> [[Barcelona Restaurants|Places to Eat]] <br />
|bgcolor="#f0e68b"|Adjourn for the day <br> [[Barcelona Restaurants|Places to Eat]] <br />
|bgcolor="#f0e68b"|'''6:00pm''' Adjourn Project Week and relocate to CARS Opening<br> '''7:30pm''' CARS Welcome Reception <br />
|}<br />
<br />
*Please note that start, end, and mealtimes have been set to match local schedules in Barcelona.<br />
*Here is a list of [[Barcelona Restaurants | locally recommended places to eat]] in the vicinity of the conference hotel. All participants are responsible for their own meals.<br />
<br />
== '''Background''' ==<br />
<br />
<br />
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. <br />
<br />
[[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. <br />
<br />
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.<br />
<br />
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]. <br />
<br />
A summary of all previous Project Events is available [[Project_Events#Past|here]].<br />
<br />
This project week is an event [[Post-NCBC-2014|endorsed]] by the MICCAI society.<br />
<br />
The 21st Project Week is being held on conjunction with the [http://www.cars-int.org/ CARS conference].<br />
<br />
Please make sure that you are on the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list]<br />
<br />
=Projects=<br />
* [[2015_Summer_Project_Week_Template | Template for project pages]]<br />
<br />
<br />
==Equipment==<br />
<br />
*[[2015_Summer_Project_Week:Equipment|Specialized equipment people are going to bring]] (Please add to this list if you are bringing anything)<br />
<br />
==Image-Guided Therapy==<br />
*[[2015_Summer_Project_Week:SlicerIGT|SlicerIGT tutorials for use cases]] (Tamas, Andras, Jay, Steve, Alvaro, Javier, Adam, Caroline, Noby)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_Refinement_Registration_Module Refinement of RegistrationModule] (Peter Behringer, Andrey Fedorov)<br />
*[[2015_Summer_Project_Week:IGTSliceletBase| Create base classes for IGT slicelet]] (Andras Lasso, Andrey Fedorov, Adam Rankin)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_BRAINSFit_registration_in_SimpleITK BRAINSFit registration in SimpleITK] (Peter Behringer, Andrey Fedorov, Dženan Zukić)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_Multi_atlas_based_prostate_segmentation Multi atlas based prostate segmentation] (Paolo Zaffino, Giampaolo Pileggi, Salvatore Scaramuzzino, Peter Behringer, Andrey Fedorov, Maria Francesca Spadea)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_Multimodal_Guidance_for_Breast_Cancer_Surgery Multimodal Guidance for Breast Cancer Surgery] (Mikael Brudfors, David García, Javier Pascau)<br />
*[[2015_pilot trajectory planning | Pilot Trajectory Planning(Caroline Essert, Sonia Pujol)]]<br />
*[[2015_Summer_Project_Week:LinearFeatureRegistration|Linear Feature Registration]] (Matthew Holden)<br />
*[[2015_Summer_Project_Week:LightWeightRobotIGT | Integration of a KUKA robot using OpenIGTLink ]] (Sebastian Tauscher, Junichi Tokuda)<br />
*[[2015_Summer_Project_Week:USReconstruction | Gated 3D Ultrasound Reconstructions with the Help of a Single-Element US Transducer ]] (Frank Preiswerk, Laurent Chauvin)<br />
*[[2015 Orthognathic Surgery|Orthognathic Surgery]] (Dženan Zukić, Kitware)<br />
*[[2015_Summer_Project_Week:SlicerTAVI | SlicerTAVI ]] (Adam Rankin)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_pyDBS pyDBS module update to Slicer4.4 (Sara Fernandez-Vidal, Yulong Zhao, Sonia Pujol)]<br />
*[[2015_Summer_Project_Week:OpenSource_MRTRUS_Fusion_for_Prostate_biopsy|Open-source MRI-TRUS Fusion for Prostate biopsy]] (Andrey Fedorov, Andras Lasso, Clare Tempany)<br />
*[[2015_Summer_Project_Week:TrackerlessMRIUSFusion | Trackerless MRI - US Registration ]] (Utsav Pardasani)<br />
<br />
==Feature Based Image Analysis==<br />
*[[2015_Summer_Project_Week:LungCAD| LungCAD]] (Jayender Jagadeesan, Tobias Penzkofer, Sandy Wells, Clara Meinzer)<br />
*[[2015_Summer_Project_Week:QuantitativeProstate | Texture Analysis for Prostate Imaging]] (Tobias Penzkofer, Jay Jagadeesan, Tina Kapur)<br />
*[[2015_Summer_Project_Week:BigDataFeatures | Big Data Medical Image Analysis using Local Features]] (Matthew Toews, William Wells, Raul San Jose Estepar, Tina Kapur)<br />
*[[2015_Summer_Project_Week:AutomaticCephalometric | Automatic Cephalometric Analysis ]] (J. Jesus Montufar, Marcelo Romero)<br />
<br />
==Chest Imaging Platform==<br />
*[[2015_Summer_Project_Week:Slicer_CIP | Slicer CIP: advanced features and deployment ]] (Raúl San José, Alex Yarmarkovich, Jorge Onieva)<br />
*[[2015_Summer_Project_Week:PAA_Ratio | PAA Ratio Module ]] (Jorge Onieva,Raúl San José)<br />
*[[2015_Summer_Project_Week:Tracheal_Stent_Planning | Planning for tracheal stents ]] (Raúl San José, Jorge Onieva, George Cheng)<br />
<br />
==QIICR==<br />
*[[2015_Summer_Project_Week:DSC | Dynamic Susceptibility Contrast (DSC) MRI for brain ]] (Xiao Da, Yangming Ou, Andriy Fedorov, Steve Pieper, Jayashree Kalpathy-Cramer)<br />
*[[2015_Summer_Project_Week:T1 mapping | T1 mapping for Dynamic Contrast Enhanced (DCE) MRI ]] (Xiao Da, Yangming Ou, Andriy Fedorov, Jayashree Kalpathy-Cramer)<br />
*[[2015_Summer_Project_Week:DCMTK| Integration and testing of new DCMTK with Slicer]] (Michael Onken, Andrey Fedorov, Steve Pieper)<br />
<br />
==Infrastructure==<br />
*[[2015_Summer_Project_Week:Python_scripts_from_command_line|Simplify use of python scripts from the command line]] (Andrey Fedorov, Steve Pieper, Robin Weiss, Artem Mamonov)<br />
*[[2015_Summer_Project_Week:Return_Fiducials_from_CLIs | Return fiducials from CLIs]] (Nicole Aucoin,Hans Meine)<br />
*[[2015_Summer_Project_Week:Update Checker | Update Checker]] (Franklin King, BWH)<br />
*[[2015_Summer_Project_Week:Integrated Virtual Reality Viewer | Integrated Virtual Reality Viewer]] (Franklin King, BWH, Utsav Pardasani)<br />
*[[2015_Summer_Project_Week:SegmentationNode| Use new Segmentation node in Editor]] (Andras Lasso, Steve Pieper)<br />
*[[2015_Summer_Project_Week:Slicer_Conda | Integrate Conda Python in Slicer]] (Jorge Onieva, Raúl San José, Utsav Pardasani, Steve Pieper)<br />
*[[2015_Summer_Project_Week:CLIModules_Backgrounding_in_MeVisLab | Running CLI Modules in the background in MeVisLab]] (Hans Meine)<br />
*[[2015_Summer_Project_Week:CLIModules_Indexing | CLI Modules elasticsearch / kibana dashboard]] (Hans Meine, JC, Steve Pieper)<br />
*[[2015_Summer_Project_Week:CTK_Interative_Plugins | CTK plugins / paths towards interoperability with GUI & interaction]] (Hans Meine, Steve Pieper, Nicolas Rannou)<br />
*[[2015_Summer_Project_Week:BRAINSFit_in_MeVisLab | Interoperability tests with "interesting" CLI modules (BRAINSFit, CIP, UKFTractography?) in MeVisLab (/Frontier)]] (Hans Meine, Steve Pieper)<br />
<br />
==Web==<br />
*[[2015_Summer_Project_Week:Dicom parsing with DCMJS | Dicom parsing with DCMJS]] (Nicolas Rannou, Michael Onken, Steve Pieper)<br />
*[[2015_Summer_Project_Week:Volume rendering with DCMJS and THREEJS | Volume Rendering with DCMJS and THREEJS]] (Nicolas Rannou, Steve Pieper)<br />
*[[2015_Summer_Project_Week:CTK for the web and touch devices| CTK for the web and touch devices]] (Nicolas Rannou, Yves Martelli, Steve Pieper)<br />
*[[2015_Summer_Project_Week:SlicerCardboard| Slicer for mobile-based vr goggles]] (Utsav Pardasani, Adam Rankin)<br />
<br />
==Astronomy==<br />
*[[2015_Summer_Project_Week:Astronomy | visualization of HI in galaxies]] (Davide Punzo)<br />
<br />
== '''Registrants''' ==<br />
<br />
Please add your name to the list. This is the registration mechanism for this project week.<br />
#Tina Kapur, BWH<br />
#Ron Kikinis, BWH & Fraunhofer<br />
#Steve Pieper, Isomics<br />
#Tamas Ungi, Queen's University, Canada<br />
#Andras Lasso, Queen's University, Canada<br />
#Paolo Zaffino, ImagEngLab, Magna Graecia University, Italy<br />
#Salvatore Scaramuzzino, ImagEngLab, Magna Graecia University, Italy<br />
#Giampaolo Pileggi, ImagEngLab, Magna Graecia University, Italy<br />
#Nicole Aucoin, BWH<br />
#Sonia Pujol, BWH<br />
#Dženan Zukić, Kitware, Carrboro, NC<br />
#Jayender Jagadeesan, BWH<br />
#Guido Gerig, Utah<br />
#Sandy Wells, BWH<br />
#Matthew Toews, École de Technologie Supérieure, Montreal, Canada<br />
#Frank Preiswerk, BWH<br />
#Raul San Jose, BWH<br />
#Jorge Onieva, BWH<br />
#Yulong Zhao, Université de Rennes<br />
#Laurent Chauvin, BWH<br />
#Michael Onken, Open Connections<br />
#Tobias Penzkofer, Department of Radiology, Charité Berlin, Germany<br />
#Javier Pascau, Universidad Carlos III de Madrid, Spain<br />
#Angel Torrado-Carvajal, Universidad Rey Juan Carlos, Madrid, Spain<br />
#Nobuhiko Hata, BWH<br />
#Robert H. Owen, BK Medical ApS, Denmark<br />
#Clare Tempany, BWH<br />
#Adam Rankin, Robarts<br />
#Utsav Pardasani, Robarts<br />
#Marcelo Romero, Facultad de Ingenieria, Universidad Autonoma del Estado de Mexico, Mexico<br />
#J. Jesus Montufar, Facultad de Ingenieria, Universidad Autonoma del Estado de Mexico, Mexico<br />
#Davide Punzo, Kapteyn Astronomical Institute, University of Groningen, Netherlands<br />
#Andrey Fedorov, BWH<br />
#Nicolas Rannou, BCH<br />
#Mikael Brudfors, Universidad Carlos III de Madrid, Spain<br />
#Laura Sanz, Universidad Carlos III de Madrid, Spain<br />
#Eugenio Marinetto, Universidad Carlos III de Madrid, Spain<br />
#David García, Universidad Carlos III de Madrid, Spain<br />
#Franklin King, Queen's University / BWH<br />
#Jorge García, Universidad Politécnica de Madrid, Spain<br />
#Peter Behringer, BWH<br />
#Caroline Essert, University of Strasbourg<br />
#Sebastian Tauscher, Institute of Mechatronic Systems, Leibniz Universität Hannover, Germany<br />
#Matthew Holden, Queen's University, Canada<br />
#Sara Fernandez Vidal, ICM, France<br />
#Laszlo Kanyasi, Perk Lab affiliate, Hungary<br />
#Xiao Da, MGH<br />
#Arnaud De Bruecker, École supérieure d'informatique, Brussels, Belgium<br />
#Ali Gottschalk, École supérieure d'informatique, Brussels, Belgium<br />
#Christophe Teixeira Pereira, École supérieure d'informatique, Brussels, Belgium<br />
#Tsotne Shonia, École supérieure d'informatique, Brussels, Belgium<br />
#Clara Meinzer, Semmelweis University, Hungary<br />
#Yves Martelli, Galgo Medical, Barcelona, Spain<br />
#Alvaro Gomez (Universidad de la Republica, Uruguay)</div>Ungihttps://www.na-mic.org/w/index.php?title=2015_Summer_Project_Week:SlicerIGT&diff=897622015 Summer Project Week:SlicerIGT2015-06-22T09:22:07Z<p>Ungi: /* Key Investigators */</p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2015.png|[[2015_Summer_Project_Week#Projects|Projects List]]<br />
Image:SlicerIGTLogo.png|SlicerIGT extension logo.<br />
Image:LumpNav-Touchscreen.png|Breast tumor surgery navigation using SlicerIGT.<br />
</gallery><br />
<br />
==Key Investigators==<br />
<br />
* Tamas Ungi, Andras Lasso (Queen's University, Kingsotn, ON, Canada)<br />
* Junichi Tokuda (BWH)<br />
* Stephen Aylward (Kitware)<br />
* Steve Pieper (Isomics, Boston, MA, USA)<br />
* Jayender Jagadeesan (BWH)<br />
* Alvaro Gomez (Universidad de la Republica, Uruguay)<br />
* Javier Pascau (Universidad Carlos III de Madrid)<br />
* Caroline Essert (Universite de Strasbourg)<br />
* Adam Rankin (Western University, London, ON, Cadana)<br />
* Nobuhiko Hata (BWH)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* SlicerIGT is an extension with modules that allow application prototyping for real time tracked and navigated medical procedures.<br />
* Improve tutorials on the [http://www.slicerigt.org SlicerIGT] website.<br />
** Collect use cases and add tutorials of common tasks in image-guided interventions.<br />
*** E.g. tracked Telemed ultrasound use case<br />
** Define a set of tutorials for MICCAI that can be executed with real hardware on all platforms.<br />
* Add auto-tests to SlicerIGT modules.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Meet with current and prospective users of SlicerIGT to learn use cases and needs.<br />
* Create tutorials that use the Multidimensional Data module for playback of recorded image-guided interventions.<br />
<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* ...<br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2015_Summer_Project_Week:SlicerIGT&diff=897602015 Summer Project Week:SlicerIGT2015-06-22T09:21:41Z<p>Ungi: /* Key Investigators */</p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2015.png|[[2015_Summer_Project_Week#Projects|Projects List]]<br />
Image:SlicerIGTLogo.png|SlicerIGT extension logo.<br />
Image:LumpNav-Touchscreen.png|Breast tumor surgery navigation using SlicerIGT.<br />
</gallery><br />
<br />
==Key Investigators==<br />
<br />
* Tamas Ungi, Andras Lasso (Queen's University, Kingsotn, ON, Canada)<br />
* Junichi Tokuda (BWH)<br />
* Stephen Aylward (Kitware)<br />
* Steve Pieper<br />
* Jayender Jagadeesan (BWH)<br />
* Alvaro Gomez (Universidad de la Republica, Uruguay)<br />
* Javier Pascau (Universidad Carlos III de Madrid)<br />
* Caroline Essert (Universite de Strasbourg)<br />
* Adam Rankin (Western University, London, ON, Cadana)<br />
* Nobuhiko Hata (BWH)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* SlicerIGT is an extension with modules that allow application prototyping for real time tracked and navigated medical procedures.<br />
* Improve tutorials on the [http://www.slicerigt.org SlicerIGT] website.<br />
** Collect use cases and add tutorials of common tasks in image-guided interventions.<br />
*** E.g. tracked Telemed ultrasound use case<br />
** Define a set of tutorials for MICCAI that can be executed with real hardware on all platforms.<br />
* Add auto-tests to SlicerIGT modules.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Meet with current and prospective users of SlicerIGT to learn use cases and needs.<br />
* Create tutorials that use the Multidimensional Data module for playback of recorded image-guided interventions.<br />
<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* ...<br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2015_Summer_Project_Week:SlicerIGT&diff=897342015 Summer Project Week:SlicerIGT2015-06-22T09:04:50Z<p>Ungi: /* Key Investigators */</p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2015.png|[[2015_Summer_Project_Week#Projects|Projects List]]<br />
Image:SlicerIGTLogo.png|SlicerIGT extension logo.<br />
Image:LumpNav-Touchscreen.png|Breast tumor surgery navigation using SlicerIGT.<br />
</gallery><br />
<br />
==Key Investigators==<br />
<br />
* Tamas Ungi, Andras Lasso (Queen's)<br />
* Junichi Tokuda (BWH)<br />
* Stephen Aylward (Kitware)<br />
* Steve Pieper<br />
* Jayender Jagadeesan (BWH)<br />
* Alvaro Gomez (Universidad de la Republica, Uruguay)<br />
* Javier Pascau (Universidad Carlos III de Madrid)<br />
* Caroline Essert (Universite de Strasbourg)<br />
* Nobuhiko Hata (BWH)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* SlicerIGT is an extension with modules that allow application prototyping for real time tracked and navigated medical procedures.<br />
* Improve tutorials on the [http://www.slicerigt.org SlicerIGT] website.<br />
** Collect use cases and add tutorials of common tasks in image-guided interventions.<br />
*** E.g. tracked Telemed ultrasound use case<br />
** Define a set of tutorials for MICCAI that can be executed with real hardware on all platforms.<br />
* Add auto-tests to SlicerIGT modules.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Meet with current and prospective users of SlicerIGT to learn use cases and needs.<br />
* Create tutorials that use the Multidimensional Data module for playback of recorded image-guided interventions.<br />
<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* ...<br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2015_Summer_Project_Week:SlicerIGT&diff=897332015 Summer Project Week:SlicerIGT2015-06-22T09:04:02Z<p>Ungi: /* Key Investigators */</p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2015.png|[[2015_Summer_Project_Week#Projects|Projects List]]<br />
Image:SlicerIGTLogo.png|SlicerIGT extension logo.<br />
Image:LumpNav-Touchscreen.png|Breast tumor surgery navigation using SlicerIGT.<br />
</gallery><br />
<br />
==Key Investigators==<br />
<br />
* Tamas Ungi, Andras Lasso (Queen's)<br />
* Junichi Tokuda (BWH)<br />
* Stephen Aylward (Kitware)<br />
* Steve Pieper<br />
* Jayender Jagadeesan (BWH)<br />
* Alvaro Gomez (Universidad de la Republica, Uruguay)<br />
* Javier Pascau (Universidad Carlos III de Madrid)<br />
* Nobuhiko Hata (BWH)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* SlicerIGT is an extension with modules that allow application prototyping for real time tracked and navigated medical procedures.<br />
* Improve tutorials on the [http://www.slicerigt.org SlicerIGT] website.<br />
** Collect use cases and add tutorials of common tasks in image-guided interventions.<br />
*** E.g. tracked Telemed ultrasound use case<br />
** Define a set of tutorials for MICCAI that can be executed with real hardware on all platforms.<br />
* Add auto-tests to SlicerIGT modules.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Meet with current and prospective users of SlicerIGT to learn use cases and needs.<br />
* Create tutorials that use the Multidimensional Data module for playback of recorded image-guided interventions.<br />
<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* ...<br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2015_Summer_Project_Week&diff=897232015 Summer Project Week2015-06-22T08:55:34Z<p>Ungi: /* Registrants */</p>
<hr />
<div>__NOTOC__<br />
<br />
[[image:PW-Summer2015.png|300px]]<br />
<br><br />
<br />
<br />
<br />
'''Welcome to the web page for the 21st Project Week! This is the first Project Week that is being held in conjunction with the [http://www.cars-int.org/ CARS conference].'''<br />
<br />
==Logistics==<br />
<br />
*'''Dates:''' June 21-24, 2015.<br />
*'''Location:''' [http://www.nh-collection.com/hotel/nh-collection-barcelona-constanza NH Collection Constanza Hotel, Barcelona, Spain]<br />
*'''REGISTRATION:''' Please register by adding your name to the list at the end of this page<br />
*'''Registration Fee:''' None. The organizers will cover the charge for the conference room, while all attendees are responsible for their own hotel rooms as well as food.<br />
*'''Hotel:''' You are welcome to book a room using the CARS 2015 conference services ([http://www.cars-int.org/fileadmin/templates/download/2015/CARS_2015_accomondation.pdf Click here for form])<br />
*To attend the CARS meeting, please visit [http://www.cars-int.org/ http://www.cars-int.org/]<br />
<br />
==Agenda==<br />
<br />
{|border="1"<br />
|-style="background:#b0d5e6;color:#02186f" <br />
!style="width:10%" |Time<br />
!style="width:18%" |Sunday, June 21 <br />
!style="width:18%" |Monday, June 22 <br> Room Berlin <br />
!style="width:18%" |Tuesday, June 23 <br> Room Berlin <br />
!style="width:18%" |Wednesday, June 24 <br> Room Berlin <br />
|-<br />
|bgcolor="#ffffdd"|'''9:00am-3:00pm:'''<br />
|rowspan=3 valign=bottom|<hr>'''6pm''' Meeting with All Participants in Hotel Constanza Lobby<br />
|'''10:00-11am:''' <font color="#503020">Rapid Introduction of all Projects and Teams <br><br />
'''11am-3pm''' <font color="#503020">Work <br><br />
<br />
|<br />
'''10:00am-11am:''' <font color="#503020">'''Breakout Session:'''</font><br>[[2014_Project_Week_Breakout_Session: Slicer for users| Slicer for users]] (Ron Kikinis) <br><br />
'''11am-3pm''' <font color="#503020">Work<br />
| <font color="#503020">Work <br><br />
|-<br />
|bgcolor="#ffffdd"|'''2:00pm-4:00pm'''<br />
|bgcolor="#ffffaa"|Lunch <br> [[Barcelona Restaurants|Places to Eat]] <br />
|bgcolor="#ffffaa"|Lunch<br> [[Barcelona Restaurants|Places to Eat]] <br />
|bgcolor="#ffffaa"|Lunch<br> [[Barcelona Restaurants|Places to Eat]] <br />
|-<br />
|bgcolor="#ffffdd"|'''4:00-7:00pm'''<br />
|<font color="#503020"> Work<br />
|'''5:00-7:00pm:''' <font color="#503020">'''Breakout Session:'''</font><br>[[2015_Summer_Project_Week/SoftwareStack| Open Software Stack]] (Steve Pieper) <br>4pm-6pm: Registration Desk Open for CARS attendees. Please pick up badges. <br><br />
|'''4:00-5:00pm:''' <font color="#503020"> Work <br><br />
'''5:00-6pm:''' Report Progress<br />
|-<br />
|bgcolor="#ffffdd"|'''7:00pm'''<br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"|Adjourn for the day <br> [[Barcelona Restaurants|Places to Eat]] <br />
|bgcolor="#f0e68b"|Adjourn for the day <br> [[Barcelona Restaurants|Places to Eat]] <br />
|bgcolor="#f0e68b"|'''6:00pm''' Adjourn Project Week and relocate to CARS Opening<br> '''7:30pm''' CARS Welcome Reception <br />
|}<br />
<br />
*Please note that start, end, and mealtimes have been set to match local schedules in Barcelona.<br />
*Here is a list of [[Barcelona Restaurants | locally recommended places to eat]] in the vicinity of the conference hotel. All participants are responsible for their own meals.<br />
<br />
== '''Background''' ==<br />
<br />
<br />
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. <br />
<br />
[[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. <br />
<br />
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.<br />
<br />
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]. <br />
<br />
A summary of all previous Project Events is available [[Project_Events#Past|here]].<br />
<br />
This project week is an event [[Post-NCBC-2014|endorsed]] by the MICCAI society.<br />
<br />
The 21st Project Week is being held on conjunction with the [http://www.cars-int.org/ CARS conference].<br />
<br />
Please make sure that you are on the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list]<br />
<br />
=Projects=<br />
* [[2015_Summer_Project_Week_Template | Template for project pages]]<br />
<br />
<br />
==Equipment==<br />
<br />
*[[2015_Summer_Project_Week:Equipment|Specialized equipment people are going to bring]] (Please add to this list if you are bringing anything)<br />
<br />
==Image-Guided Therapy==<br />
*[[2015_Summer_Project_Week:SlicerIGT|SlicerIGT tutorials for use cases]] (Tamas Ungi, Andras Lasso, Jayender Jagadeesan, Alvaro Gomez, Noby Hata)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_Refinement_Registration_Module Refinement of RegistrationModule] (Peter Behringer, Andrey Fedorov)<br />
*[[2015_Summer_Project_Week:IGTSliceletBase| Create base classes for IGT slicelet]] (Andras Lasso, Andrey Fedorov, Adam Rankin)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_BRAINSFit_registration_in_SimpleITK BRAINSFit registration in SimpleITK] (Peter Behringer, Andrey Fedorov, Dženan Zukić)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_Multi_atlas_based_prostate_segmentation Multi atlas based prostate segmentation] (Paolo Zaffino, Giampaolo Pileggi, Salvatore Scaramuzzino, Peter Behringer, Andrey Fedorov, Maria Francesca Spadea)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_Multimodal_Guidance_for_Breast_Cancer_Surgery Multimodal Guidance for Breast Cancer Surgery] (Mikael Brudfors, Javier Pascau)<br />
*[[2015_pilot trajectory planning | Pilot Trajectory Planning(Caroline Essert, Sonia Pujol)]]<br />
*[[2015_Summer_Project_Week:LinearFeatureRegistration|Linear Feature Registration]] (Matthew Holden)<br />
*[[2015_Summer_Project_Week:LightWeightRobotIGT | Integration of a KUKA robot using OpenIGTLink ]] (Sebastian Tauscher, Junichi Tokuda)<br />
*[[2015_Summer_Project_Week:USReconstruction | Gated 3D Ultrasound Reconstructions with the Help of a Single-Element US Transducer ]] (Frank Preiswerk, Laurent Chauvin)<br />
*[[2015 Orthognathic Surgery|Orthognathic Surgery]] (Dženan Zukić, Kitware)<br />
*[[2015_Summer_Project_Week:SlicerTAVI | SlicerTAVI ]] (Adam Rankin)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_pyDBS pyDBS module update to Slicer4.4 (Sara Fernandez-Vidal, Yulong Zhao, Sonia Pujol)]<br />
*[[2015_Summer_Project_Week:OpenSource_MRTRUS_Fusion_for_Prostate_biopsy|Open-source MRI-TRUS Fusion for Prostate biopsy]] (Andrey Fedorov, Andras Lasso, Clare Tempany)<br />
*[[2015_Summer_Project_Week:TrackerlessMRIUSFusion | Trackerless MRI - US Registration ]] (Utsav Pardasani)<br />
<br />
==Feature Based Image Analysis==<br />
*[[2015_Summer_Project_Week:LungCAD| LungCAD]] (Jayender Jagadeesan, Tobias Penzkofer, Sandy Wells, Clara Meinzer)<br />
*[[2015_Summer_Project_Week:QuantitativeProstate | Texture Analysis for Prostate Imaging]] (Tobias Penzkofer, Jay Jagadeesan, Tina Kapur)<br />
*[[2015_Summer_Project_Week:BigDataFeatures | Big Data Medical Image Analysis using Local Features]] (Matthew Toews, William Wells, Raul San Jose Estepar, Tina Kapur)<br />
*[[2015_Summer_Project_Week:AutomaticCephalometric | Automatic Cephalometric Analysis ]] (J. Jesus Montufar, Marcelo Romero)<br />
<br />
==Chest Imaging Platform==<br />
*[[2015_Summer_Project_Week:Slicer_CIP | Slicer CIP: advanced features and deployment ]] (Raúl San José, Alex Yarmarkovich, Jorge Onieva)<br />
*[[2015_Summer_Project_Week:PAA_Ratio | PAA Ratio Module ]] (Jorge Onieva,Raúl San José)<br />
*[[2015_Summer_Project_Week:Tracheal_Stent_Planning | Planning for tracheal stents ]] (Raúl San José, Jorge Onieva, George Cheng)<br />
<br />
==QIICR==<br />
*[[2015_Summer_Project_Week:DSC | Dynamic Susceptibility Contrast (DSC) MRI for brain ]] (Xiao Da, Yangming Ou, Andriy Fedorov, Steve Pieper, Jayashree Kalpathy-Cramer)<br />
*[[2015_Summer_Project_Week:T1 mapping | T1 mapping for Dynamic Contrast Enhanced (DCE) MRI ]] (Xiao Da, Yangming Ou, Andriy Fedorov, Jayashree Kalpathy-Cramer)<br />
*[[2015_Summer_Project_Week:DCMTK| Integration and testing of new DCMTK with Slicer]] (Michael Onken, Andrey Fedorov, Steve Pieper)<br />
<br />
==Infrastructure==<br />
*[[2015_Summer_Project_Week:Python_scripts_from_command_line|Simplify use of python scripts from the command line]] (Andrey Fedorov, Steve Pieper, Robin Weiss, Artem Mamonov)<br />
*[[2015_Summer_Project_Week:Return_Fiducials_from_CLIs | Return fiducials from CLIs]] (Nicole Aucoin,Hans Meine)<br />
*[[2015_Summer_Project_Week:Update Checker | Update Checker]] (Franklin King, BWH)<br />
*[[2015_Summer_Project_Week:Integrated Virtual Reality Viewer | Integrated Virtual Reality Viewer]] (Franklin King, BWH, Utsav Pardasani)<br />
*[[2015_Summer_Project_Week:SegmentationNode| Use new Segmentation node in Editor]] (Andras Lasso, Steve Pieper)<br />
*[[2015_Summer_Project_Week:Slicer_Conda | Integrate Conda Python in Slicer]] (Raúl San José, Jorge Onieva, Utsav Pardasani)<br />
*[[2015_Summer_Project_Week:CLIModules_Backgrounding_in_MeVisLab | Running CLI Modules in the background in MeVisLab]] (Hans Meine)<br />
*[[2015_Summer_Project_Week:CLIModules_Indexing | CLI Modules elasticsearch / kibana dashboard]] (Hans Meine, JC, Steve Pieper)<br />
*[[2015_Summer_Project_Week:CTK_Interative_Plugins | CTK plugins / paths towards interoperability with GUI & interaction]] (Hans Meine, Steve Pieper, Nicolas Rannou)<br />
*[[2015_Summer_Project_Week:BRAINSFit_in_MeVisLab | Interoperability tests with "interesting" CLI modules (BRAINSFit, CIP, UKFTractography?) in MeVisLab (/Frontier)]] (Hans Meine, Steve Pieper)<br />
<br />
==Web==<br />
*[[2015_Summer_Project_Week:Dicom parsing with DCMJS | Dicom parsing with DCMJS]] (Nicolas Rannou, Michael Onken, Steve Pieper)<br />
*[[2015_Summer_Project_Week:Volume rendering with DCMJS and THREEJS | Volume Rendering with DCMJS and THREEJS]] (Nicolas Rannou, Steve Pieper)<br />
*[[2015_Summer_Project_Week:CTK for the web and touch devices| CTK for the web and touch devices]] (Nicolas Rannou, Yves Martelli, Steve Pieper)<br />
*[[2015_Summer_Project_Week:SlicerCardboard| Slicer for mobile-based vr goggles]] (Utsav Pardasani, Adam Rankin)<br />
<br />
==Astronomy==<br />
*[[2015_Summer_Project_Week:Astronomy | visualization of HI in galaxies]] (Davide Punzo)<br />
<br />
== '''Registrants''' ==<br />
<br />
Please add your name to the list. This is the registration mechanism for this project week.<br />
#Tina Kapur, BWH<br />
#Ron Kikinis, BWH & Fraunhofer<br />
#Steve Pieper, Isomics<br />
#Tamas Ungi, Queen's University, Canada<br />
#Andras Lasso, Queen's University, Canada<br />
#Paolo Zaffino, ImagEngLab, Magna Graecia University, Italy<br />
#Salvatore Scaramuzzino, ImagEngLab, Magna Graecia University, Italy<br />
#Giampaolo Pileggi, ImagEngLab, Magna Graecia University, Italy<br />
#Nicole Aucoin, BWH<br />
#Sonia Pujol, BWH<br />
#Dženan Zukić, Kitware, Carrboro, NC<br />
#Jayender Jagadeesan, BWH<br />
#Guido Gerig, Utah<br />
#Sandy Wells, BWH<br />
#Matthew Toews, École de Technologie Supérieure, Montreal, Canada<br />
#Frank Preiswerk, BWH<br />
#Raul San Jose, BWH<br />
#Jorge Onieva, BWH<br />
#Yulong Zhao, Université de Rennes<br />
#Laurent Chauvin, BWH<br />
#Michael Onken, Open Connections<br />
#Tobias Penzkofer, Department of Radiology, Charité Berlin, Germany<br />
#Javier Pascau, Universidad Carlos III de Madrid, Spain<br />
#Angel Torrado-Carvajal, Universidad Rey Juan Carlos, Madrid, Spain<br />
#Nobuhiko Hata, BWH<br />
#Robert H. Owen, BK Medical ApS, Denmark<br />
#Clare Tempany, BWH<br />
#Adam Rankin, Robarts<br />
#Utsav Pardasani, Robarts<br />
#Marcelo Romero, Facultad de Ingenieria, Universidad Autonoma del Estado de Mexico, Mexico<br />
#J. Jesus Montufar, Facultad de Ingenieria, Universidad Autonoma del Estado de Mexico, Mexico<br />
#Davide Punzo, Kapteyn Astronomical Institute, University of Groningen, Netherlands<br />
#Andrey Fedorov, BWH<br />
#Nicolas Rannou, BCH<br />
#Mikael Brudfors, Universidad Carlos III de Madrid, Spain<br />
#Laura Sanz, Universidad Carlos III de Madrid, Spain<br />
#Eugenio Marinetto, Universidad Carlos III de Madrid, Spain<br />
#David García, Universidad Carlos III de Madrid, Spain<br />
#Franklin King, Queen's University / BWH<br />
#Jorge García, Universidad Politécnica de Madrid, Spain<br />
#Peter Behringer, BWH<br />
#Caroline Essert, University of Strasbourg<br />
#Sebastian Tauscher, Institute of Mechatronic Systems, Leibniz Universität Hannover, Germany<br />
#Matthew Holden, Queen's University, Canada<br />
#Sara Fernandez Vidal, ICM, France<br />
#Laszlo Kanyasi, Perk Lab affiliate, Hungary<br />
#Xiao Da, MGH<br />
#Arnaud De Bruecker, École supérieure d'informatique, Brussels, Belgium<br />
#Ali Gottschalk, École supérieure d'informatique, Brussels, Belgium<br />
#Christophe Teixeira Pereira, École supérieure d'informatique, Brussels, Belgium<br />
#Tsotne Shonia, École supérieure d'informatique, Brussels, Belgium<br />
#Clara Meinzer, Semmelweis University, Hungary<br />
#Yves Martelli, Galgo Medical, Barcelona, Spain<br />
#Alvaro Gomez (Universidad de la Republica, Uruguay)</div>Ungihttps://www.na-mic.org/w/index.php?title=2015_Summer_Project_Week:SlicerIGT&diff=896712015 Summer Project Week:SlicerIGT2015-06-22T08:36:01Z<p>Ungi: /* Key Investigators */</p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2015.png|[[2015_Summer_Project_Week#Projects|Projects List]]<br />
Image:SlicerIGTLogo.png|SlicerIGT extension logo.<br />
Image:LumpNav-Touchscreen.png|Breast tumor surgery navigation using SlicerIGT.<br />
</gallery><br />
<br />
==Key Investigators==<br />
<br />
* Tamas Ungi, Andras Lasso (Queen's)<br />
* Junichi Tokuda (BWH)<br />
* Stephen Aylward (Kitware)<br />
* Steve Pieper<br />
* Jayender Jagadeesan (BWH)<br />
* Alvaro Gomez (Universidad de la Republica, Uruguay)<br />
* Nobuhiko Hata (BWH)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* SlicerIGT is an extension with modules that allow application prototyping for real time tracked and navigated medical procedures.<br />
* Improve tutorials on the [http://www.slicerigt.org SlicerIGT] website.<br />
** Collect use cases and add tutorials of common tasks in image-guided interventions.<br />
*** E.g. tracked Telemed ultrasound use case<br />
** Define a set of tutorials for MICCAI that can be executed with real hardware on all platforms.<br />
* Add auto-tests to SlicerIGT modules.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Meet with current and prospective users of SlicerIGT to learn use cases and needs.<br />
* Create tutorials that use the Multidimensional Data module for playback of recorded image-guided interventions.<br />
<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* ...<br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2015_Summer_Project_Week&diff=896692015 Summer Project Week2015-06-22T08:34:18Z<p>Ungi: /* Image-Guided Therapy */</p>
<hr />
<div>__NOTOC__<br />
<br />
[[image:PW-Summer2015.png|300px]]<br />
<br><br />
<br />
<br />
<br />
'''Welcome to the web page for the 21st Project Week! This is the first Project Week that is being held in conjunction with the [http://www.cars-int.org/ CARS conference].'''<br />
<br />
==Logistics==<br />
<br />
*'''Dates:''' June 21-24, 2015.<br />
*'''Location:''' [http://www.nh-collection.com/hotel/nh-collection-barcelona-constanza NH Collection Constanza Hotel, Barcelona, Spain]<br />
*'''REGISTRATION:''' Please register by adding your name to the list at the end of this page<br />
*'''Registration Fee:''' None. The organizers will cover the charge for the conference room, while all attendees are responsible for their own hotel rooms as well as food.<br />
*'''Hotel:''' You are welcome to book a room using the CARS 2015 conference services ([http://www.cars-int.org/fileadmin/templates/download/2015/CARS_2015_accomondation.pdf Click here for form])<br />
*To attend the CARS meeting, please visit [http://www.cars-int.org/ http://www.cars-int.org/]<br />
<br />
==Agenda==<br />
<br />
{|border="1"<br />
|-style="background:#b0d5e6;color:#02186f" <br />
!style="width:10%" |Time<br />
!style="width:18%" |Sunday, June 21 <br />
!style="width:18%" |Monday, June 22 <br> Room Berlin <br />
!style="width:18%" |Tuesday, June 23 <br> Room Berlin <br />
!style="width:18%" |Wednesday, June 24 <br> Room Berlin <br />
|-<br />
|bgcolor="#ffffdd"|'''9:00am-3:00pm:'''<br />
|rowspan=3 valign=bottom|<hr>'''6pm''' Meeting with All Participants in Hotel Constanza Lobby<br />
|'''10:00-11am:''' <font color="#503020">Rapid Introduction of all Projects and Teams <br><br />
'''11am-3pm''' <font color="#503020">Work <br><br />
<br />
|<br />
'''10:00am-11am:''' <font color="#503020">'''Breakout Session:'''</font><br>[[2014_Project_Week_Breakout_Session: Slicer for users| Slicer for users]] (Ron Kikinis) <br><br />
'''11am-3pm''' <font color="#503020">Work<br />
| <font color="#503020">Work <br><br />
|-<br />
|bgcolor="#ffffdd"|'''2:00pm-4:00pm'''<br />
|bgcolor="#ffffaa"|Lunch <br> [[Barcelona Restaurants|Places to Eat]] <br />
|bgcolor="#ffffaa"|Lunch<br> [[Barcelona Restaurants|Places to Eat]] <br />
|bgcolor="#ffffaa"|Lunch<br> [[Barcelona Restaurants|Places to Eat]] <br />
|-<br />
|bgcolor="#ffffdd"|'''4:00-7:00pm'''<br />
|<font color="#503020"> Work<br />
|'''5:00-7:00pm:''' <font color="#503020">'''Breakout Session:'''</font><br>[[2015_Summer_Project_Week/SoftwareStack| Open Software Stack]] (Steve Pieper) <br>4pm-6pm: Registration Desk Open for CARS attendees. Please pick up badges. <br><br />
|'''4:00-5:00pm:''' <font color="#503020"> Work <br><br />
'''5:00-6pm:''' Report Progress<br />
|-<br />
|bgcolor="#ffffdd"|'''7:00pm'''<br />
|bgcolor="#f0e68b"|<br />
|bgcolor="#f0e68b"|Adjourn for the day <br> [[Barcelona Restaurants|Places to Eat]] <br />
|bgcolor="#f0e68b"|Adjourn for the day <br> [[Barcelona Restaurants|Places to Eat]] <br />
|bgcolor="#f0e68b"|'''6:00pm''' Adjourn Project Week and relocate to CARS Opening<br> '''7:30pm''' CARS Welcome Reception <br />
|}<br />
<br />
*Please note that start, end, and mealtimes have been set to match local schedules in Barcelona.<br />
*Here is a list of [[Barcelona Restaurants | locally recommended places to eat]] in the vicinity of the conference hotel. All participants are responsible for their own meals.<br />
<br />
== '''Background''' ==<br />
<br />
<br />
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. <br />
<br />
[[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. <br />
<br />
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.<br />
<br />
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]. <br />
<br />
A summary of all previous Project Events is available [[Project_Events#Past|here]].<br />
<br />
This project week is an event [[Post-NCBC-2014|endorsed]] by the MICCAI society.<br />
<br />
The 21st Project Week is being held on conjunction with the [http://www.cars-int.org/ CARS conference].<br />
<br />
Please make sure that you are on the [http://public.kitware.com/mailman/listinfo/na-mic-project-week na-mic-project-week mailing list]<br />
<br />
=Projects=<br />
* [[2015_Summer_Project_Week_Template | Template for project pages]]<br />
<br />
<br />
==Equipment==<br />
<br />
*[[2015_Summer_Project_Week:Equipment|Specialized equipment people are going to bring]] (Please add to this list if you are bringing anything)<br />
<br />
==Image-Guided Therapy==<br />
*[[2015_Summer_Project_Week:SlicerIGT|SlicerIGT tutorials for use cases]] (Tamas Ungi, Andras Lasso, Jayender Jagadeesan, Alvaro Gomez, Noby Hata)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_Refinement_Registration_Module Refinement of RegistrationModule] (Peter Behringer, Andrey Fedorov)<br />
*[[2015_Summer_Project_Week:IGTSliceletBase| Create base classes for IGT slicelet]] (Andras Lasso, Andrey Fedorov, Adam Rankin)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_BRAINSFit_registration_in_SimpleITK BRAINSFit registration in SimpleITK] (Peter Behringer, Andrey Fedorov, Dženan Zukić)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_Multi_atlas_based_prostate_segmentation Multi atlas based prostate segmentation] (Paolo Zaffino, Giampaolo Pileggi, Salvatore Scaramuzzino, Peter Behringer, Andrey Fedorov, Maria Francesca Spadea)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_Multimodal_Guidance_for_Breast_Cancer_Surgery Multimodal Guidance for Breast Cancer Surgery] (Mikael Brudfors, Javier Pascau)<br />
*[[2015_pilot trajectory planning | Pilot Trajectory Planning(Caroline Essert, Sonia Pujol)]]<br />
*[[2015_Summer_Project_Week:LinearFeatureRegistration|Linear Feature Registration]] (Matthew Holden)<br />
*[[2015_Summer_Project_Week:LightWeightRobotIGT | Integration of a KUKA robot using OpenIGTLink ]] (Sebastian Tauscher, Junichi Tokuda)<br />
*[[2015_Summer_Project_Week:USReconstruction | Gated 3D Ultrasound Reconstructions with the Help of a Single-Element US Transducer ]] (Frank Preiswerk, Laurent Chauvin)<br />
*[[2015 Orthognathic Surgery|Orthognathic Surgery]] (Dženan Zukić, Kitware)<br />
*[[2015_Summer_Project_Week:SlicerTAVI | SlicerTAVI ]] (Adam Rankin)<br />
*[http://www.na-mic.org/Wiki/index.php/2015_pyDBS pyDBS module update to Slicer4.4 (Sara Fernandez-Vidal, Yulong Zhao, Sonia Pujol)]<br />
<br />
==Feature Based Image Analysis==<br />
*[[2015_Summer_Project_Week:LungCAD| LungCAD]] (Jayender Jagadeesan, Tobias Penzkofer, Sandy Wells)<br />
*[[2015_Summer_Project_Week:QuantitativeProstate | Texture Analysis for Prostate Imaging]] (Tobias Penzkofer, Jay Jagadeesan, Tina Kapur)<br />
*[[2015_Summer_Project_Week:BigDataFeatures | Big Data Medical Image Analysis using Local Features]] (Matthew Toews, William Wells, Raul San Jose Estepar, Tina Kapur)<br />
*[[2015_Summer_Project_Week:AutomaticCephalometric | Automatic Cephalometric Analysis ]] (J. Jesus Montufar, Marcelo Romero)<br />
<br />
==Chest Imaging Platform==<br />
*[[2015_Summer_Project_Week:Slicer_CIP | Slicer CIP: advanced features and deployment ]] (Raúl San José, Alex Yarmarkovich, Jorge Onieva)<br />
*[[2015_Summer_Project_Week:PAA_Ratio | PAA Ratio Module ]] (Jorge Onieva,Raúl San José)<br />
*[[2015_Summer_Project_Week:Tracheal_Stent_Planning | Planning for tracheal stents ]] (Raúl San José, Jorge Onieva, George Cheng)<br />
<br />
==QIICR==<br />
*[[2015_Summer_Project_Week:DSC | Dynamic Susceptibility Contrast (DSC) MRI for brain ]] (Xiao Da, Yangming Ou, Andriy Fedorov, Steve Pieper, Jayashree Kalpathy-Cramer)<br />
*[[2015_Summer_Project_Week:T1 mapping | T1 mapping for Dynamic Contrast Enhanced (DCE) MRI ]] (Xiao Da, Yangming Ou, Andriy Fedorov, Jayashree Kalpathy-Cramer)<br />
*[[2015_Summer_Project_Week:DCMTK| Integration and testing of new DCMTK with Slicer]] (Michael Onken, Andrey Fedorov, Steve Pieper)<br />
<br />
==Infrastructure==<br />
*[[2015_Summer_Project_Week:Python_scripts_from_command_line|Simplify use of python scripts from the command line]] (Andrey Fedorov, Steve Pieper, Robin Weiss, Artem Mamonov)<br />
*[[2015_Summer_Project_Week:Return_Fiducials_from_CLIs | Return fiducials from CLIs]] (Nicole Aucoin,Hans Meine)<br />
*[[2015_Summer_Project_Week:Update Checker | Update Checker]] (Franklin King, BWH)<br />
*[[2015_Summer_Project_Week:Integrated Virtual Reality Viewer | Integrated Virtual Reality Viewer]] (Franklin King, BWH)<br />
*[[2015_Summer_Project_Week:SegmentationNode| Use new Segmentation node in Editor]] (Andras Lasso, Steve Pieper)<br />
*[[2015_Summer_Project_Week:Slicer_Conda | Integrate Conda Python in Slicer]] (Raúl San José, Jorge Onieva)<br />
*[[2015_Summer_Project_Week:CLIModules_Backgrounding_in_MeVisLab | Running CLI Modules in the background in MeVisLab]] (Hans Meine)<br />
*[[2015_Summer_Project_Week:CLIModules_Indexing | CLI Modules elasticsearch / kibana dashboard]] (Hans Meine, JC, Steve Pieper)<br />
*[[2015_Summer_Project_Week:CTK_Interative_Plugins | CTK plugins / paths towards interoperability with GUI & interaction]] (Hans Meine, Steve Pieper, Nicolas Rannou)<br />
*[[2015_Summer_Project_Week:BRAINSFit_in_MeVisLab | Interoperability tests with "interesting" CLI modules (BRAINSFit, CIP, UKFTractography?) in MeVisLab (/Frontier)]] (Hans Meine, Steve Pieper)<br />
<br />
==Web==<br />
*[[2015_Summer_Project_Week:Dicom parsing with DCMJS | Dicom parsing with DCMJS]] (Nicolas Rannou, Michael Onken, Steve Pieper)<br />
*[[2015_Summer_Project_Week:Volume rendering with DCMJS and THREEJS | Volume Rendering with DCMJS and THREEJS]] (Nicolas Rannou, Steve Pieper)<br />
*[[2015_Summer_Project_Week:CTK for the web and touch devices| CTK for the web and touch devices]] (Nicolas Rannou, Yves Martelli, Steve Pieper)<br />
*[[2015_Summer_Project_Week:SlicerCardboard| Slicer for mobile-based vr goggles]] (Utsav Pardasani, Adam Rankin)<br />
<br />
==Astronomy==<br />
*[[2015_Summer_Project_Week:Astronomy | visualization of HI in galaxies]] (Davide Punzo)<br />
<br />
== '''Registrants''' ==<br />
<br />
Please add your name to the list. This is the registration mechanism for this project week.<br />
#Tina Kapur, BWH<br />
#Ron Kikinis, BWH & Fraunhofer<br />
#Steve Pieper, Isomics<br />
#Tamas Ungi, Queen's University, Canada<br />
#Andras Lasso, Queen's University, Canada<br />
#Paolo Zaffino, ImagEngLab, Magna Graecia University, Italy<br />
#Salvatore Scaramuzzino, ImagEngLab, Magna Graecia University, Italy<br />
#Giampaolo Pileggi, ImagEngLab, Magna Graecia University, Italy<br />
#Nicole Aucoin, BWH<br />
#Sonia Pujol, BWH<br />
#Dženan Zukić, Kitware, Carrboro, NC<br />
#Jayender Jagadeesan, BWH<br />
#Guido Gerig, Utah<br />
#Sandy Wells, BWH<br />
#Matthew Toews, École de Technologie Supérieure, Montreal, Canada<br />
#Frank Preiswerk, BWH<br />
#Raul San Jose, BWH<br />
#Jorge Onieva, BWH<br />
#Yulong Zhao, Université de Rennes<br />
#Laurent Chauvin, BWH<br />
#Michael Onken, Open Connections<br />
#Tobias Penzkofer, Department of Radiology, Charité Berlin, Germany<br />
#Javier Pascau, Universidad Carlos III de Madrid, Spain<br />
#Angel Torrado-Carvajal, Universidad Rey Juan Carlos, Madrid, Spain<br />
#Nobuhiko Hata, BWH<br />
#Robert H. Owen, BK Medical ApS, Denmark<br />
#Clare Tempany, BWH<br />
#Adam Rankin, Robarts<br />
#Utsav Pardasani, Robarts<br />
#Marcelo Romero, Facultad de Ingenieria, Universidad Autonoma del Estado de Mexico, Mexico<br />
#J. Jesus Montufar, Facultad de Ingenieria, Universidad Autonoma del Estado de Mexico, Mexico<br />
#Davide Punzo, Kapteyn Astronomical Institute, University of Groningen, Netherlands<br />
#Andrey Fedorov, BWH<br />
#Nicolas Rannou, BCH<br />
#Mikael Brudfors, Universidad Carlos III de Madrid, Spain<br />
#Laura Sanz, Universidad Carlos III de Madrid, Spain<br />
#Eugenio Marinetto, Universidad Carlos III de Madrid, Spain<br />
#David García, Universidad Carlos III de Madrid, Spain<br />
#Franklin King, Queen's University / BWH<br />
#Jorge García, Universidad Politécnica de Madrid, Spain<br />
#Peter Behringer, BWH<br />
#Caroline Essert, University of Strasbourg<br />
#Sebastian Tauscher, Institute of Mechatronic Systems, Leibniz Universität Hannover, Germany<br />
#Matthew Holden, Queen's University, Canada<br />
#Sara Fernandez Vidal, ICM, France<br />
#Laszlo Kanyasi, Perk Lab affiliate, Hungary<br />
#Xiao Da, MGH<br />
#Arnaud De Bruecker, École supérieure d'informatique, Brussels, Belgium<br />
#Ali Gottschalk, École supérieure d'informatique, Brussels, Belgium<br />
#Christophe Teixeira Pereira, École supérieure d'informatique, Brussels, Belgium<br />
#Tsotne Shonia, École supérieure d'informatique, Brussels, Belgium<br />
#Clara Meinzer, Semmelweis University, Hungary<br />
#Yves Martelli, Galgo Medical, Barcelona, Spain</div>Ungihttps://www.na-mic.org/w/index.php?title=2015_Summer_Project_Week:SlicerIGT&diff=896442015 Summer Project Week:SlicerIGT2015-06-22T07:46:04Z<p>Ungi: </p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2015.png|[[2015_Summer_Project_Week#Projects|Projects List]]<br />
Image:SlicerIGTLogo.png|SlicerIGT extension logo.<br />
Image:LumpNav-Touchscreen.png|Breast tumor surgery navigation using SlicerIGT.<br />
</gallery><br />
<br />
==Key Investigators==<br />
<br />
* Tamas Ungi, Andras Lasso (Queen's)<br />
* Junichi Tokuda (BWH)<br />
* Stephen Aylward (Kitware)<br />
* Steve Pieper<br />
* Jayender Jagadeesan (BWH)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* SlicerIGT is an extension with modules that allow application prototyping for real time tracked and navigated medical procedures.<br />
* Improve tutorials on the [http://www.slicerigt.org SlicerIGT] website.<br />
** Collect use cases and add tutorials of common tasks in image-guided interventions.<br />
*** E.g. tracked Telemed ultrasound use case<br />
** Define a set of tutorials for MICCAI that can be executed with real hardware on all platforms.<br />
* Add auto-tests to SlicerIGT modules.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Meet with current and prospective users of SlicerIGT to learn use cases and needs.<br />
* Create tutorials that use the Multidimensional Data module for playback of recorded image-guided interventions.<br />
<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* ...<br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=2015_Summer_Project_Week:SlicerIGT&diff=896432015 Summer Project Week:SlicerIGT2015-06-22T07:45:50Z<p>Ungi: </p>
<hr />
<div>__NOTOC__<br />
<gallery><br />
Image:PW-Summer2015.png|[[2015_Summer_Project_Week#Projects|Projects List]]<br />
Image:SlicerIGTLogo.png|SlicerIGT extension logo.<br />
Image:http:LumpNav-Touchscreen.png|Breast tumor surgery navigation using SlicerIGT.<br />
</gallery><br />
<br />
==Key Investigators==<br />
<br />
* Tamas Ungi, Andras Lasso (Queen's)<br />
* Junichi Tokuda (BWH)<br />
* Stephen Aylward (Kitware)<br />
* Steve Pieper<br />
* Jayender Jagadeesan (BWH)<br />
<br />
==Project Description==<br />
<div style="margin: 20px;"><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Objective</h3><br />
* SlicerIGT is an extension with modules that allow application prototyping for real time tracked and navigated medical procedures.<br />
* Improve tutorials on the [http://www.slicerigt.org SlicerIGT] website.<br />
** Collect use cases and add tutorials of common tasks in image-guided interventions.<br />
*** E.g. tracked Telemed ultrasound use case<br />
** Define a set of tutorials for MICCAI that can be executed with real hardware on all platforms.<br />
* Add auto-tests to SlicerIGT modules.<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Approach, Plan</h3><br />
* Meet with current and prospective users of SlicerIGT to learn use cases and needs.<br />
* Create tutorials that use the Multidimensional Data module for playback of recorded image-guided interventions.<br />
<br />
</div><br />
<div style="width: 27%; float: left; padding-right: 3%;"><br />
<h3>Progress</h3><br />
* ...<br />
</div><br />
</div></div>Ungihttps://www.na-mic.org/w/index.php?title=File:LumpNav-Touchscreen.png&diff=89642File:LumpNav-Touchscreen.png2015-06-22T07:44:46Z<p>Ungi: Slicer used in breast surgery navigation. Slicer is shown on and controlled from a touchscreen (Microsoft Surface).</p>
<hr />
<div>Slicer used in breast surgery navigation. Slicer is shown on and controlled from a touchscreen (Microsoft Surface).</div>Ungi