Difference between revisions of "Summer project week 2010 Workflows SOA"

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__NOTOC__
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<gallery>
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Image:PW-MIT2010.png|[[2010_Summer_Project_Week#Projects|Projects List]]
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Image:genuFAp.jpg|Scatter plot of the original FA data through the genu of the corpus callosum of a normal brain.
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Image:genuFA.jpg|Regression of FA data; solid line represents the mean and dotted lines the standard deviation.
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</gallery>
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==Instructions for Use of this Template==
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#Please create a new wiki page with an appropriate title for your project using the convention Project/<Project Name>
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#Copy the entire text of this page into the page created above
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#Link the created page into the list of projects for the project event
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#Delete this section from the created page
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#Send an email to tkapur at bwh.harvard.edu if you are stuck
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==Key Investigators==
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* UNC: Isabelle Corouge, Casey Goodlett, Guido Gerig
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* Utah: Tom Fletcher, Ross Whitaker
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<div style="margin: 20px;">
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<div style="width: 27%; float: left; padding-right: 3%;">
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<h3>Objective</h3>
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We are developing methods for analyzing diffusion tensor data along fiber tracts. The goal is to be able to make statistical group comparisons with fiber tracts as a common reference frame for comparison.
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</div>
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<div style="width: 27%; float: left; padding-right: 3%;">
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<h3>Approach, Plan</h3>
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Our approach for analyzing diffusion tensors is summarized in the IPMI 2007 reference below.  The main challenge to this approach is <foo>.
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Our plan for the project week is to first try out <bar>,...
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</div>
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<div style="width: 40%; float: left;">
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<h3>Progress</h3>
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Software for the fiber tracking and statistical analysis along the tracts has been implemented. The statistical methods for diffusion tensors are implemented as ITK code as part of the [[NA-MIC/Projects/Diffusion_Image_Analysis/DTI_Software_and_Algorithm_Infrastructure|DTI Software Infrastructure]] project. The methods have been validated on a repeated scan of a healthy individual. This work has been published as a conference paper (MICCAI 2005) and a journal version (MEDIA 2006). Our recent IPMI 2007 paper includes a nonparametric regression method for analyzing data along a fiber tract.
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</div>
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</div>
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<div style="width: 97%; float: left;">
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==Delivery Mechanism==
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This work will be delivered to the NA-MIC Kit as a (please select the appropriate options by noting YES against them below)
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#ITK Module
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#Slicer Module
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##Built-in
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##Extension -- commandline
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##Extension -- loadable
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#Other (Please specify)
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==References==
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*Fletcher P, Tao R, Jeong W, Whitaker R. [http://www.na-mic.org/publications/item/view/634 A volumetric approach to quantifying region-to-region white matter connectivity in diffusion tensor MRI.] Inf Process Med Imaging. 2007;20:346-358. PMID: 17633712.
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* Corouge I, Fletcher P, Joshi S, Gouttard S, Gerig G. [http://www.na-mic.org/publications/item/view/292 Fiber tract-oriented statistics for quantitative diffusion tensor MRI analysis.] Med Image Anal. 2006 Oct;10(5):786-98. PMID: 16926104.
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* Corouge I, Fletcher P, Joshi S, Gilmore J, Gerig G. [http://www.na-mic.org/publications/item/view/1122 Fiber tract-oriented statistics for quantitative diffusion tensor MRI analysis.] Int Conf Med Image Comput Comput Assist Interv. 2005;8(Pt 1):131-9. PMID: 16685838.
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* Goodlett C, Corouge I, Jomier M, Gerig G, A Quantitative DTI Fiber Tract Analysis Suite, The Insight Journal, vol. ISC/NAMIC/ MICCAI Workshop on Open-Source Software, 2005, Online publication: http://hdl.handle.net/1926/39 .
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</div>
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'''Main Project Page:''' <br>
 
'''Main Project Page:''' <br>
 
[http://wiki.na-mic.org/Wiki/index.php/Projects:ARRA:SlicerWF SlicerWF Page]
 
[http://wiki.na-mic.org/Wiki/index.php/Projects:ARRA:SlicerWF SlicerWF Page]

Revision as of 16:57, 17 June 2010

Home < Summer project week 2010 Workflows SOA

  • Scatter plot of the original FA data through the genu of the corpus callosum of a normal brain.

  • Regression of FA data; solid line represents the mean and dotted lines the standard deviation.

Instructions for Use of this Template

  1. Please create a new wiki page with an appropriate title for your project using the convention Project/<Project Name>
  2. Copy the entire text of this page into the page created above
  3. Link the created page into the list of projects for the project event
  4. Delete this section from the created page
  5. Send an email to tkapur at bwh.harvard.edu if you are stuck

Key Investigators

  • UNC: Isabelle Corouge, Casey Goodlett, Guido Gerig
  • Utah: Tom Fletcher, Ross Whitaker

Objective

We are developing methods for analyzing diffusion tensor data along fiber tracts. The goal is to be able to make statistical group comparisons with fiber tracts as a common reference frame for comparison.




Approach, Plan

Our approach for analyzing diffusion tensors is summarized in the IPMI 2007 reference below. The main challenge to this approach is <foo>.

Our plan for the project week is to first try out <bar>,...

Progress

Software for the fiber tracking and statistical analysis along the tracts has been implemented. The statistical methods for diffusion tensors are implemented as ITK code as part of the DTI Software Infrastructure project. The methods have been validated on a repeated scan of a healthy individual. This work has been published as a conference paper (MICCAI 2005) and a journal version (MEDIA 2006). Our recent IPMI 2007 paper includes a nonparametric regression method for analyzing data along a fiber tract.


Delivery Mechanism

This work will be delivered to the NA-MIC Kit as a (please select the appropriate options by noting YES against them below)

  1. ITK Module
  2. Slicer Module
    1. Built-in
    2. Extension -- commandline
    3. Extension -- loadable
  3. Other (Please specify)

References


Main Project Page:
SlicerWF Page

Use Case Presentations:
SlicerWF Presentations

Plans for 2010 Summer Project Week:

  • Use Case Scenarios. Live Demo
    • Emphysema Assessment: Integration of Slicer Extension, Cluster Computing, XNAT Image Repository
    • Image Preprocessing Workflow for EM Segmentation: Integration of Slicer Internal Modules, XNAT Image Repository
    • Registration and Resampling to Common Space of Multi-Modality (PET/CT) Images for Longitudinal Studies: Integration of Slicer CLI and GUI Modules. (See Slicer Wizard for PET/CT workflow for details).
  • Complex Image Processing using Slicer3 and 3-rd Party Modules
  • Quest for Existing Slicer3 Functionality Extensions
    • Slicer Wizards for Integration with Web Services and Workflow Instances
    • Brain Mask Extraction
    • White Matter Lesion Segmentation
  • (On Demand) Tutorial Demo for Composing Workflow Applications
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