Summer project week 2010 Workflows SOA

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

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  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

• BWH: Alexander Zaitsev, Wendy Plesnyak, Charles Guttmann, Ron Kikinis

Objective

Supplement 3D Slicer and Extensible Neuroimaging Archive Toolkit (XNAT) with workflow management system. Provide integration and interoperability between 3D Slicer, XNAT Services and 3-rd party image processing applications and high performance computing systems. Implement it as within currently developed Structural Planning and Implementation in Neurological Exploration (SPINE) System.

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 No
   2. Extension -- commandline Yes (Workflow Invocation Stubs)
   3. Extension -- loadable No
3. Other -- Web Service Libraries, Workflow Composite Applications deployable on GlassFish Application Server, Rich Clients for Orchestrating Workflows and Slicer GUI

References

• Main Project Page: SlicerWF Page
• Use Case Presentations: SlicerWF Presentations
• Integration with Slicer GUI: Slicer Wizard for PET/CT workflow

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
  • Use Case Presentation: Segmentation for Social Cognition Study for MS Patients (PECS University, Hungary File:SlicerWF NAC PECS Workflow.pdf )
• 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