Difference between revisions of "2010 Summer Project Week Cortical Thickness Analysis"
From NAMIC Wiki
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==Key Investigators== | ==Key Investigators== | ||
− | * UNC: | + | * UNC: Clement Vachet, Heather Cody Hazlett, Martin Styner |
− | + | ||
+ | <div style="margin: 20px;"> | ||
+ | <div style="width: 27%; float: left; padding-right: 3%;"> | ||
<h3>Objective</h3> | <h3>Objective</h3> | ||
+ | We would like to create end-to-end applications within Slicer3 allowing voxel-based and mesh-based group analyses of cortical thickness. | ||
+ | |||
+ | Such a workflow applied to the young brain (2-4 years old) is our goal in order to start a longitudinal study of early brain development in [[DBP2:UNC|autism (UNC DBP)]]. | ||
+ | |||
+ | See our [[DBP2:UNC:Cortical_Thickness_Roadmap| Roadmap]] for more details. | ||
− | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | </div> | ||
<div style="width: 27%; float: left; padding-right: 3%;"> | <div style="width: 27%; float: left; padding-right: 3%;"> | ||
<h3>Approach, Plan</h3> | <h3>Approach, Plan</h3> | ||
− | |||
− | |||
− | |||
− | + | Our approach is described in the following wiki pages: | |
− | + | *[[DBP2:UNC:Regional_Cortical_Thickness_Pipeline|Voxel-based regional cortical thickness analysis]] | |
+ | *[[DBP2:UNC:Local_Cortical_Thickness_Pipeline|Mesh-based local cortical thickness analysis]] | ||
− | ** | + | Two 3D Slicer high-level modules have been developped in that regard: |
− | + | *[http://www.nitrc.org/projects/arctic ARCTIC: Automatic Regional Cortical ThICkness] | |
+ | *[http://www.nitrc.org/projects/gambit GAMBIT: Group-wise Automatic Mesh-Based analysis of cortIcal Thickness ] | ||
+ | |||
+ | Our plan for the project week is to: | ||
+ | * Follow-up on ARCTIC: Make it directly available as a 3D Slicer extension on MAC (compilation issues apparently) | ||
+ | * Follow-up on GAMBIT: further developmenent, e.g by prodiving new 3D Slicer MRML scenes for quality control | ||
</div> | </div> | ||
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==Delivery Mechanism== | ==Delivery Mechanism== | ||
− | This work will be delivered as | + | This work will be delivered to the NA-MIC Kit as a: |
+ | |||
+ | #ITK Module | ||
+ | #Slicer Module | ||
+ | ##Built-in | ||
+ | ##Extension -- commandline - YES | ||
+ | ##Extension -- loadable | ||
+ | #Other (Please specify) | ||
==References== | ==References== | ||
− | ** M. Styner, | + | *I. Oguz, M. Niethammer, J. Cates, R. Whitaker, T. Fletcher, C. Vachet, and M. Styner, Cortical Correspondence with Probabilistic Fiber Connectivity, Information Processing in Medical Imaging, IPMI 2009, LNCS, in print. |
+ | *H.C. Hazlett, C. Vachet, C. Mathieu, M. Styner, J. Piven, Use of the Slicer3 Toolkit to Produce Regional Cortical Thickness Measurement of Pediatric MRI Data, presented at the 8th Annual International Meeting for Autism Research (IMFAR) Chicago, IL 2009. | ||
+ | *C. Vachet, H.C. Hazlett, M. Niethammer, I. Oguz, J.Cates, R. Whitaker, J. Piven, M. Styner, Mesh-based Local Cortical Thickness Framework, UNC Radiology Research Day 2010 abstract | ||
+ | *C. Mathieu, C. Vachet, H.C. Hazlett, G. Geric, J. Piven, and M. Styner, ARCTIC – Automatic Regional Cortical ThICkness Tool, UNC Radiology Research Day 2009 abstract | ||
</div> | </div> |
Revision as of 20:54, 16 June 2010
Home < 2010 Summer Project Week Cortical Thickness Analysis
Key Investigators
- UNC: Clement Vachet, Heather Cody Hazlett, Martin Styner
Objective
We would like to create end-to-end applications within Slicer3 allowing voxel-based and mesh-based group analyses of cortical thickness.
Such a workflow applied to the young brain (2-4 years old) is our goal in order to start a longitudinal study of early brain development in autism (UNC DBP).
See our Roadmap for more details.
Approach, Plan
Our approach is described in the following wiki pages:
Two 3D Slicer high-level modules have been developped in that regard:
- ARCTIC: Automatic Regional Cortical ThICkness
- GAMBIT: Group-wise Automatic Mesh-Based analysis of cortIcal Thickness
Our plan for the project week is to:
- Follow-up on ARCTIC: Make it directly available as a 3D Slicer extension on MAC (compilation issues apparently)
- Follow-up on GAMBIT: further developmenent, e.g by prodiving new 3D Slicer MRML scenes for quality control
Progress
Delivery Mechanism
This work will be delivered to the NA-MIC Kit as a:
- ITK Module
- Slicer Module
- Built-in
- Extension -- commandline - YES
- Extension -- loadable
- Other (Please specify)
References
- I. Oguz, M. Niethammer, J. Cates, R. Whitaker, T. Fletcher, C. Vachet, and M. Styner, Cortical Correspondence with Probabilistic Fiber Connectivity, Information Processing in Medical Imaging, IPMI 2009, LNCS, in print.
- H.C. Hazlett, C. Vachet, C. Mathieu, M. Styner, J. Piven, Use of the Slicer3 Toolkit to Produce Regional Cortical Thickness Measurement of Pediatric MRI Data, presented at the 8th Annual International Meeting for Autism Research (IMFAR) Chicago, IL 2009.
- C. Vachet, H.C. Hazlett, M. Niethammer, I. Oguz, J.Cates, R. Whitaker, J. Piven, M. Styner, Mesh-based Local Cortical Thickness Framework, UNC Radiology Research Day 2010 abstract
- C. Mathieu, C. Vachet, H.C. Hazlett, G. Geric, J. Piven, and M. Styner, ARCTIC – Automatic Regional Cortical ThICkness Tool, UNC Radiology Research Day 2009 abstract