Difference between revisions of "Linear Mixed-effects shape model to explore Huntington's Disease Data"
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Image:PW-MIT2013.png|[[2013_Summer_Project_Week#Projects|Projects List]] | Image:PW-MIT2013.png|[[2013_Summer_Project_Week#Projects|Projects List]] | ||
+ | Image:Ctrl01.png|fixed-effects slope for 7 control subjects (10 sub-cortical structures, 3 time points each). blue => expansion, yellow => contraction] | ||
+ | Image:HD01.png|fixed-effects slope for 6 HD subjects (10 sub-cortical structures, 3 time points each). blue => expansion, yellow => contraction] | ||
</gallery> | </gallery> | ||
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==Key Investigators== | ==Key Investigators== | ||
* UIowa: Hans Johnson, Dave Welch | * UIowa: Hans Johnson, Dave Welch | ||
− | * Utah: Manasi Datar, Ross Whitaker | + | * Utah: Manasi Datar, Josh Cates, Ross Whitaker |
<div style="margin: 20px;"> | <div style="margin: 20px;"> | ||
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Meet with UIowa team to: | Meet with UIowa team to: | ||
* give an overview of results from the linear mixed-effects shape model | * give an overview of results from the linear mixed-effects shape model | ||
− | * explain the ShapeWorks command line tools to | + | * explain the ShapeWorks command line tools to optimize and analyze correspondences |
− | * discuss next steps toward making these tools accessible to UIowa team | + | * discuss next steps toward making these tools accessible to UIowa team |
</div> | </div> | ||
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<h3>Progress</h3> | <h3>Progress</h3> | ||
− | + | preliminary results look promising | |
− | + | ||
+ | [https://github.com/joshcates/ITKParticleShapeModeling ITKv4] module for mixed-effects model available on GitHub | ||
+ | * tested on Windows and Linux | ||
+ | * application to run mixed-effects model on single component shapes (90%) | ||
+ | |||
+ | To Do | ||
+ | * get working code for shape complexes (multiple structures per shape) | ||
+ | * example parameter file for preprocessing shapes, initializing correspondences and applying mixed-effects model | ||
+ | * extracting labels from input labelmap (various components in the shape) - clarify and possibly add a tool to the preprocessing stage | ||
Latest revision as of 14:00, 21 June 2013
Home < Linear Mixed-effects shape model to explore Huntington's Disease DataKey Investigators
- UIowa: Hans Johnson, Dave Welch
- Utah: Manasi Datar, Josh Cates, Ross Whitaker
Objective
Make the linear mixed-effects shape model accessible for further exploration of Huntington's Disease Data
Approach, Plan
Meet with UIowa team to:
- give an overview of results from the linear mixed-effects shape model
- explain the ShapeWorks command line tools to optimize and analyze correspondences
- discuss next steps toward making these tools accessible to UIowa team
Progress
preliminary results look promising
ITKv4 module for mixed-effects model available on GitHub
- tested on Windows and Linux
- application to run mixed-effects model on single component shapes (90%)
To Do
- get working code for shape complexes (multiple structures per shape)
- example parameter file for preprocessing shapes, initializing correspondences and applying mixed-effects model
- extracting labels from input labelmap (various components in the shape) - clarify and possibly add a tool to the preprocessing stage
References
M Datar, P Muralidharan, A Kumar, S Gouttard, J Piven, G Gerig, RT Whitaker, PT Fletcher, Mixed-Effects Shape Models for Estimating Longitudinal Changes in Anatomy, STIA 2012