NAMIC Wiki - User contributions [en]

People

2009-12-08T20:52:59Z

Megkun: /* NA-MIC alumni */

== Personnel at least partially funded by NA-MIC ==

#Leadership Core
## [[User:Kikinis|Ron Kikinis]], Harvard (BWH SPL) PI
## [[User:Naucoin|Nicole Aucoin]], Harvard (BWH SPL)
## Wendy Plesniak, Harvard (BWH SPL)
## [[User:Marianna|Marianna Jakab]], Harvard (BWH SPL)
## [[User:Mastrogiacom|Katie Mastrogiacomo]], Harvard (BWH SPL)
# Algorithms Core
## [http://www.cs.utah.edu/~whitaker/ Ross Whitaker], Utah PI
## [http://www.sci.utah.edu/~gerig/ Guido Gerig], Utah
## [[Eric_Grimson|Eric Grimson]], MIT (CSAIL)
## [[Polina_Golland|Polina Golland]], MIT (CSAIL) PI
## [[User:Styner|Martin Styner]], UNC PI
## [http://www.ece.gatech.edu/faculty/fac_profiles/bio.php?empno=502435 Allen Tannenbaum], Georgia Tech, PI
## [http://www.nmr.mgh.harvard.edu/martinos/people/showPerson.php?people_id=56 Bruce Fischl], Ph.D, Harvard (MGH)
## [[User:Gcasey|Casey Goodlett]], Utah
## Preston T. Fletcher, Utah
## Ran Tao, Utah
## Fernando DeOliveria, MIT
## Ipek Oguz, UNC
## Vandana Mohan, Georgia Tech
# Engineering Core
## [[User:Will| Will Schroeder]], Kitware PI
## [[User:Ibanez|Luis Ibanez]], Kitware
## [http://www.kitware.com/profile/team/hoffman.html/ William Hoffman], Kitware
## [[User:Barre|Sebastien Barre]], Kitware
## [[User:Millerjv|Jim Miller]], GE PI
## [[User:Taox|Xiaodong Tao]], GE
## James Ross, GE
## [[User:Pieper|Steve Pieper]], Isomics PI
## Alex Yarmakovich, Isomics
## [http://nrg.wustl.edu Daniel Marcus], WUSTL
##Mikhail Milchenko, WUSTL
##Kevin Archie, WUSTL
## Arthur W. Toga, UCLA PI
## Nathan Hageman, UCLA
##Celia Cheung, UCLA
## Mark Ellisman, UCSD PI
## Jeff Grethe, UCSD
## Marco Ruiz, UCSD
# Driving Biological Problems (DBP)
## [http://www.cisst.org/~gabor/ Gabor Fichtinger], Queen's University, PI
## Jeremy Bockholt, The Mind Institute, PI
## [http://www.med.unc.edu/psych/directories/hazlett.htm/ Heather Cody Hazlett], UNC PI
## [http://lmi.bwh.harvard.edu/~kubicki/ Marek Kubicki], Harvard (BWH) Site PI
##[http://media.cs.queensu.ca/purang/ Purang Abolmaesumi], Queen's University
## [http://imaging.robarts.ca/~dgobbi/ David Gobbi], Queen's University
##Vikal, Queen's University
## Mark Scully, The Mind Institute
## Clement Vachet, UNC
## Rachel Gimpel Smith, UNC
## Gary Long, UNC
##Jorge Alvarado, Harvard (BWH)
##Padmapriya Srinivazan, Harvard (BWH)
##Jennifer Goodrich, Harvard (BWH)
# Service Core
## [[User:Will|Will Schroeder]], Kitware PI
## Zack Galbreath, Kitware
# Training Core
## [[User:Randy|Randy Gollub]], Harvard (MGH) PI
## [[User:SPujol|Sonia Pujol]], Harvard (BWH SPL)
# Dissemination Core
## [[User:Tkapur|Tina Kapur]], Harvard (BWH SPL) co-PI
## [[User:Pieper|Steve Pieper]], Isomics co-PI
# Management Core
## Rachana Manandhar, Harvard (BWH SPL)
## [[User:Sanjay|Sanjay Manandhar]], Harvard (BWH SPL)

== NA-MIC Collaborators ==
These NA-MIC collaborators are funded under the "Collaboration with NCBC" PAR.
#Nicole Grosland, UIowa
#Vincent Magnotta, UIowa
#Steve Pieper, Isomics
#James Daunais, Wake Forest
#Robert Kraft, Wake Forest
#Chris Wyatt, Virginia Tech
#Kilian Pohl, Harvard (BWH SPL)
#Sandy Wells, Harvard (BWH SPL)
#Kevin Cleary, Georgetown
#Enrique Campos-Nanez, George Washington U.
#Patrick (Peng) Cheng, Georgetown
#Ziv Yaniv, Georgetown
#Nobuhiko Hata, Harvard (BWH)

==NA-MIC EAB==

Our External Advisory Board members are listed [[EAB|here]].

== NA-MIC alumni ==
* [http://marchingcubes.org Bill Lorensen]
* [[User:Lzollei|Lilla Zollei]], MIT (CSAIL)
* Lauren O'Donnell, MIT (CSAIL)
* [http://people.csail.mit.edu/wanmei/ Wanmei Ou], MIT (CSAIL)
* [[Mahnaz_Maddah|Mahnaz Maddah]], MIT (CSAIL)
* Ramsey Al-Hakim, Georgia Tech
* [[User:Melonakos|John Melonakos]], Georgia Tech
* [[User:Lankton|Shawn Lankton]], Georgia Tech
* [[User:Nain|Delphine Nain]], Georgia Tech
* Xavier Le Faucheur, Georgia Tech
* [[User:Mohan|Vandana Mohan]], Georgia Tech
* Tom Fletcher, Utah
* [http://www.sci.utah.edu/cgi-bin/SCIpersonnel.pl?username=tolga Tolga Tasdizen], Utah
* [http://www.cs.utah.edu/~sbasu/ Saurav Basu], Utah
* Josh Snyder, Harvard (MGH)
* [[User:DavidTuch|David Tuch]], Harvard (MGH)
* [[User:Karthik|Karthik Krishnan]],Kitware
* [http://www.kitware.com/profile/team/cedilnik.html/ Andy Cedilnik], Kitware
* [[User:Mathieu|Mathieu Malaterre]], Kitware
* [http://www.stat.ucla.edu/~dinov/ Ivo Dinov], UCLA
* [[User:MichaelPan|Michael Pan]], UCLA
* Brendan Flaherty, UCSD
* [[User:Adamc|Adam Cohen]], Harvard (BWH PNL)
* [[User:Markd|Mark Dreusicke]], Harvard (BWH PNL)
* Martha Shenton, Harvard (BWH PNL) PI
* [http://lmi.bwh.harvard.edu/~sylvain/ Sylvain Bouix], Harvard (BWH PNL)
* [http://lmi.bwh.harvard.edu/~marc/ Marc Niethammer], Harvard (BWH PNL)
* [http://synapse.hitchcock.org/bios/saykin.shtml Andy Saykin], Dartmouth PI
* Bob Roth, Dartmouth
* [http://synapse.hitchcock.org/bios/flashman.shtml Laura Flashman], Dartmouth
* [http://www.dhmc.org/providers/dhmc_provider_634.html Thomas McAllister], Dartmouth
* Alan Green, Dartmouth
* John West, Dartmouth
* [http://synapse.hitchcock.org/bios/mchugh.shtml/ Tara McHugh], Dartmouth
* [http://synapse.hitchcock.org/bios/pixley.shtml Heather Pixley], Dartmouth
* Stephen Guerin, Dartmouth
* John MacDonald, Dartmouth
* [http://www.bic.uci.edu/faculty/sgpotkin.htm/ Steve Potkin], UCI PI
* [[User:Jfallon|James Fallon]], UCI
* Jessica Turner, UCI
* Martina Panzenboeck, UCI
* David Medina, UCI
* [http://www.ics.uci.edu/~smyth/ Padhraic Smyth], UCI
* [http://www.ics.uci.edu/~sternh/ Hal Stern], UCI
* Diane Highum, UCI
* [http://www.ess.uci.edu/~yu/ Yi Jin], UCI
* Liv Trondsen, UCI
* Fabio Macciardi, Toronto
* [http://www.utpsychiatry.ca/dirsearch.asp?id=130 Jim Kennedy], Toronto
* Aristotle Voineskos, Toronto
* [http://kotaro.naist.jp/~meg/eindex.html Megumi Nakao], NAIST

== "Friends and Family" ==

=== NIH ===

* [[User:Lysterp|Peter M. Lyster]]

=== mBIRN ===

* [[User:Akolasny|Anthony Kolasny]]
* [[User:Dmarcus|Dan Marcus]]
* [[User:Kikinis|Ron Kikinis]]

=== fBIRN ===

* [[User:Kikinis|Ron Kikinis]]

=== IGT ===

* [[User:Ibanez|Luis Ibanez]]
* [[User:Noby| Nobuhiko Hata]]

=== Other ===

File:Fem cuda.png

2009-06-25T22:35:14Z

Megkun: uploaded a new version of "File:Fem cuda.png"

GPU accelerated FEM for simulation and segmentation

2009-06-25T22:33:16Z

Megkun: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
Image:Fem_slicer.png|[[Elastic deformation results on Slicer]]
Image:Fem_cuda.png|[[FEM Comutation time on GPU]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have got the following results through this project week
* The FEM-based deformation library was implemented on the Slicer framework.
* Elastic deformation results were confirmed using sample data.
* CUBLAS library enables interactive update of the stiffness matrix for tetrahedral meshes with 2000 vertices

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (in press)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-25T22:31:51Z

Megkun: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
Image:Fem_slicer.png|[[Elastic deformation results on Slicer]]
Image:Fem_cuda.png|[[FEM Comutation time on GPU]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have got the following results through this project week
* integrated the FEM-based deformation library into the Slicer framework.
* confirmed elastic deformation results on sample data.
* CUBLAS library enables interactive update of the stiffness matrix for tetrahedral meshes with 2000 vertices

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (in press)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-25T22:30:37Z

Megkun: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
Image:Fem_slicer.png|[[Elastic deformation results on Slicer]]
Image:Fem_cuda.png|[[FEM Comutation time on GPU]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have got the following results through this project week
* integrated the FEM-based deformation library into the Slicer framework.
* confirmed elastic deformation results on sample data.
* CUBLAS library allows partial update of the stiffness matrix for tetrahedral meshes with 2000 vertices

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (in press)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-25T22:27:22Z

Megkun: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
Image:Fem_slicer.png|[[Elastic deformation results on Slicer]]
Image:Fem_cuda.png|[[FEM Comutation time on GPU]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have got the following results through this project week
* integrated the FEM-based deformation library into the Slicer framework.
* confirmed elastic deformation results on sample data.
* tetrahedral meshes with 2000 vertices can be computed at interactive rate using the CUBLAS library.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (in press)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-25T22:26:02Z

Megkun: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
Image:Fem_slicer.png|[[Elastic deformation results on Slicer]]
Image:Fem_cuda.png|[[FEM Comutation time on GPU]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have got the following results through this project week
* integrated the FEM-based deformation library into the Slicer framework.
* confirmed elastic deformation results on sample data.
* over 1000 vertices model with partial update can be computed at interactive rate using the CUBLAS library.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (in press)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-25T22:24:48Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
Image:Fem_slicer.png|[[Elastic deformation results on Slicer]]
Image:Fem_cuda.png|[[FEM Comutation time on GPU]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have got the following results through this project week
* integrated the FEM-based deformation library into the Slicer framework.
* confirmed elastic deformation results on sample data.
* over 1000 vertices model can be solved in real time using the CUBLAS library.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (in press)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

File:Fem cuda.png

2009-06-25T22:23:50Z

Megkun:

GPU accelerated FEM for simulation and segmentation

2009-06-25T20:01:35Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
Image:Fem_slicer.png|[[Elastic deformation results on Slicer]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have got the following results through this project week
* integrated the FEM-based deformation library into the Slicer framework.
* confirmed elastic deformation results on sample data.
* over 1000 vertices model can be solved in real time using the CUBLAS library.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (in press)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

File:Fem slicer.png

2009-06-25T18:29:39Z

Megkun: uploaded a new version of "File:Fem slicer.png"

GPU accelerated FEM for simulation and segmentation

2009-06-25T18:23:07Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
Image:Fem_slicer.png|[[Elastic deformation results on Slicer]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have got the following results through this project week
* integrated the FEM-based deformation library into the Slicer framework.
* confirmed elastic deformation results on sample data.
* over 1000 vertices model can be solved in real time using the CUBLAS library.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (To appear)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-25T18:22:45Z

Megkun:

__NOTOC__
{|
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
Image:Fem_slicer.png|[[Elastic deformation results on Slicer]]
|}

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have got the following results through this project week
* integrated the FEM-based deformation library into the Slicer framework.
* confirmed elastic deformation results on sample data.
* over 1000 vertices model can be solved in real time using the CUBLAS library.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (To appear)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-25T18:22:02Z

Megkun:

__NOTOC__
{
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
Image:Fem_slicer.png|[[Elastic deformation results on Slicer]]
}

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have got the following results through this project week
* integrated the FEM-based deformation library into the Slicer framework.
* confirmed elastic deformation results on sample data.
* over 1000 vertices model can be solved in real time using the CUBLAS library.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (To appear)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-25T18:21:47Z

Megkun:

__NOTOC__
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
Image:Fem_slicer.png|[[Elastic deformation results on Slicer]]

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have got the following results through this project week
* integrated the FEM-based deformation library into the Slicer framework.
* confirmed elastic deformation results on sample data.
* over 1000 vertices model can be solved in real time using the CUBLAS library.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (To appear)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-25T18:19:46Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
Image:Fem_slicer.png|[[Elastic deformation results on Slicer]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have got the following results through this project week
* integrated the FEM-based deformation library into the Slicer framework.
* confirmed elastic deformation results on sample data.
* over 1000 vertices model can be solved in real time using the CUBLAS library.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (To appear)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-25T18:19:02Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
Image:FEM_slicer.png|[[Elastic deformation results on Slicer]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have got the following results through this project week
* integrated the FEM-based deformation library into the Slicer framework.
* confirmed elastic deformation results on sample data.
* over 1000 vertices model can be solved in real time using the CUBLAS library.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (To appear)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-25T18:18:38Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
Image:FEM_slicer.png|[[FEM deformation on Slicer]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have got the following results through this project week
* integrated the FEM-based deformation library into the Slicer framework.
* confirmed elastic deformation results on sample data.
* over 1000 vertices model can be solved in real time using the CUBLAS library.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (To appear)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

File:Fem slicer.png

2009-06-25T18:17:57Z

Megkun:

GPU accelerated FEM for simulation and segmentation

2009-06-25T18:16:41Z

Megkun: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have got the following results through this project week
* integrated the FEM-based deformation library into the Slicer framework.
* confirmed elastic deformation results on sample data.
* over 1000 vertices model can be solved in real time using the CUBLAS library.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (To appear)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-25T18:15:52Z

Megkun: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have got the following results through this project week
* implemented the FEM-based deformation library on the Slicer framework.
* confirmed elastic deformation results on sample data.
* over 1000 vertices model can be solved in real time using the CUBLAS library.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (To appear)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-25T18:15:04Z

Megkun: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have got the following results through this project week
* implemented the FEM-based deformation library on the Slicer framework.
* got some elastic deformation results on sample data.
* over 1000 vertices model can be solved in real time using the CUBLAS library.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (To appear)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-25T18:14:43Z

Megkun: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have got the following results through this project week
* implemented the FEM-based deformation library on the Slicer framework.
* got some elastic deformation results on sample data.
* around 3000 vertices model can be solved in real time using the CUBLAS library.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (To appear)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-25T18:11:47Z

Megkun: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
We have got the following results through this project week
* implemented the FEM-based deformation library on the Slicer framework.
* got some elastic deformation results on sample data.
* linear equation can be solved in real time using the CUBLAS library.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (To appear)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-23T13:12:56Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
I will work on Wednesday, Thursday afternoon and Friday.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (To appear)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-23T13:12:47Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png:400px|[[FEM deformation]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
I will work on Wednesday, Thursday afternoon and Friday.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (To appear)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-23T13:12:34Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation:400px]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
I will work on Wednesday, Thursday afternoon and Friday.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (To appear)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-23T13:11:01Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
I will work on Wednesday, Thursday afternoon and Friday.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (To appear)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-23T13:10:50Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
I will work in Wednesday, Thursday afternoon and Friday.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (To appear)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-23T13:10:36Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
I will work in Wendnesday, Thursday afternoon and Friday.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (To appear)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html (My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-23T13:10:00Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM deformation]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
I will work in Wendnesday, Thursday afternoon and Friday.

</div>

==References==
* M. Nakao and K. Minato, "Physics-based Interactive Volume Manipulation for Sharing Surgical Process", IEEE Trans. on Information Technology in Biomedicine, 2009. (To appear)
* H. K. W. Cecilia, M. Nakao and K. Minato, "Automated Volume Sampling Optimization for Direct Volume Manipulation in Patient-specific Surgical Simulation", IEEE International Symposium on Biomedical Imaging, June 2009. (To appear)
* M. Nakao, S. Yano, T. Matsuyuki, T. Kawamoto and M. Kotaro, "Interactive Volume Manipulation for Supporting Preoperative Planning", Stud. Health Tech. Inform. (MMVR), Vol. 125, pp. 316-321, Jan. 2008.
* M. Nakao, A. Kawashima, K. Minato, M. Kokubo, "Simulating Lung Tumor Motion for Dynamic Tumor-Tracking Irradiation", IEEE Nuclear Science Symposium and Medical Imaging Conference, pp. 4549-4551, Oct. 2007.
* M. Nakao, T. Kuroda, M. Komori, H. Oyama, K. Minato and T. Takahashi, "Transferring Bioelasticity Knowledge through Haptic Interaction", IEEE Multimedia, Vol. 13, No. 3, pp.50-60, Jul. 2006.
* http://kotaro.naist.jp/~meg/eindex.html(My homepage)

</div>

GPU accelerated FEM for simulation and segmentation

2009-06-23T13:08:25Z

Megkun:

GPU accelerated FEM for simulation and segmentation

2009-06-23T13:06:39Z

Megkun:

GPU accelerated FEM for simulation and segmentation

2009-06-23T13:06:28Z

Megkun:

GPU accelerated FEM for simulation and segmentation

2009-06-23T13:05:22Z

Megkun:

GPU accelerated FEM for simulation and segmentation

2009-06-23T13:00:44Z

Megkun:

GPU accelerated FEM for simulation and segmentation

2009-06-23T12:59:01Z

Megkun:

GPU accelerated FEM for simulation and segmentation

2009-06-22T19:18:29Z

Megkun:

GPU accelerated FEM for simulation and segmentation

2009-06-22T19:18:01Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM_deformation]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
Under writing...

</div>
</div>

GPU accelerated FEM for simulation and segmentation

2009-06-22T19:17:43Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM_deform.png]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
Under writing...

</div>
</div>

GPU accelerated FEM for simulation and segmentation

2009-06-22T19:17:18Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png|[[FEM-based deform.png]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
Under writing...

</div>
</div>

GPU accelerated FEM for simulation and segmentation

2009-06-22T19:16:38Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:FEM_deform.png
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
Under writing...

</div>
</div>

File:FEM deform.png

2009-06-22T19:15:53Z

Megkun:

GPU accelerated FEM for simulation and segmentation

2009-06-22T18:53:25Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation library for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
Under writing...

</div>
</div>

GPU accelerated FEM for simulation and segmentation

2009-06-22T18:52:27Z

Megkun: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation function for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* make tetrahedral meshes from medical images and set up physical conditions. Other mesh formats, points and surface models will be probablly accepted.
* evaluate some deformation results qualitatively and improve the simulation.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
Under writing...

</div>
</div>

GPU accelerated FEM for simulation and segmentation

2009-06-22T18:49:16Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation function for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* create tetrahedral meshes from medical images and set up physical conditions. Other mesh formats will be probablly accepted.
* check some deformation resutls and seek the requirement
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
Under writing...

</div>
</div>

GPU accelerated FEM for simulation and segmentation

2009-06-22T18:48:08Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation function for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* create tetrahedral meshes from medical images and set up physical conditions. Other mesh formats will be probablly accepted.
* check the deformation resutls on some specific medical data.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
Under writing...

</div>
</div>

GPU accelerated FEM for simulation and segmentation

2009-06-22T18:47:21Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation function for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform deformation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* create tetrahedral meshes from medical images and set up physical conditions. Other mesh formats will be probablly accepted.
* check the deformation resutls on some specific data.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
Under writing...

</div>
</div>

GPU accelerated FEM for simulation and segmentation

2009-06-22T18:46:17Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing a fast FEM-based mesh deformation function for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform simulation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* create tetrahedral meshes from medical images and set up physical conditions. Other mesh formats will be probablly accepted.
* check the deformation resutls on some specific data.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
Under writing...

</div>
</div>

GPU accelerated FEM for simulation and segmentation

2009-06-22T18:45:04Z

Megkun:

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
</gallery>

==Key Investigators==
* Megumi Nakao and Nobuhiko Hata

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing fast FEM-based mesh deformation algos for interactive simulation and segmentation.
The goal in this project week is summarized as
* integrate linear FEM-based deformation algo into the slicer
* perform simulation on specific data
* implement GPU-based acceleration for real-time deformation

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
* integrate a liner FEM solver(original C++ source) into the 3D slicer framework.
* create tetrahedral meshes from medical images and set up physical conditions. Other mesh formats will be probablly accepted.
* check the deformation resutls on some specific data.
* try GPU-based acceleration by modifying the linear equation solver using CUBLAS library.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>
Under writing...

</div>
</div>