Difference between revisions of "Summer project week 2011 Workflows SOA"

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Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
 
Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
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Image:notfound.png|Interesting picture to be added...
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Image:SlicerWF_LA_GUI.png|Left Atrium Ablation Follow-Up WF GUI
 
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==Key Investigators==
 
==Key Investigators==
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* Brigham and Womens Hospital, Harvard Medical School: Alexander Zaitsev, Wendy Plesniak, Ron Kikini
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* Brigham and Womens Hospital, Harvard Medical School: Alexander Zaitsev, Wendy Plesniak, Charles Guttmann, Ron Kikinis
  
  
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#:Trying to build existing thin clients (Slicelets)   
 
#:Trying to build existing thin clients (Slicelets)   
 
#:as Slicer4 Extensions.
 
#:as Slicer4 Extensions.
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#:Add Left Atrium Ablation scar segmentation into the CARMA workflow
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#:Add Left Atrium Ablation scar segmentation into the CARMA workflow (RSS or LA Segmenter?)
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#:Incorporate MS Lesion EM Segmentation
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#:Incorporate MS Lesion EM Segmentation Scenario into the workflows   
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#:Scenario into the workflows   
 
  
 
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<h3>Progress</h3>
 
<h3>Progress</h3>
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'''Slicer4 Extensions and Custom Builds:'''
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<!-- Fill this out before Friday's summary presentations - list what you did and how well it worked. -->
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<br> Learned how to do. Have to deal with package build for 32-bit Mac
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<br>
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'''CARMA workflow''':<br>
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Gave several Life demos (including) general SOA/workflows approach. Identified ergonomic to be addressed in CARMA WF GUI <br>
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Segmented hyperintencity regions at left atrium wall (RSS module). Issue: overestimation, need to add more thresholding controls to RSS.<br>
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'''MS Lesion Segmentation'''<br>
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Worked with EM Segmenter module builders on adult and pediatric cases segmentation<br>
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Lesion overestimation have to be addressed: can be done with manual correction<br>
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Long running pre-processing steps make SOA/WF approach preferable for Lesion Segmentation <br>
  
 
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Image:SlicerWF_LA_Sample.png|Manual Segmentation Sample(Utah Team)
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Image:SlicerWF_LA_RSS.png|RSS Segmentation Attempt
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<div style="width: 97%; float: left;">
 
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[[http://wiki.na-mic.org/Wiki/index.php/Winter_project_week_2011_Workflows_SOA Winter_project_week_2011_Workflows_SOA]] Winter 2001 Project Week Page
 
[[http://wiki.na-mic.org/Wiki/index.php/Winter_project_week_2011_Workflows_SOA Winter_project_week_2011_Workflows_SOA]] Winter 2001 Project Week Page
 
<br>
 
<br>
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[[http://www.slicer.org/slicerWiki/index.php/Modules:RobustStatisticsSeg-Documentation-3.6 Left Atrium Ablation Project, CARMA Wokflow]] CARMA Workflow Page
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[[http://www.na-mic.org/Wiki/index.php/DBP3:Utah Left Atrium Ablation Project, CARMA Wokflow]] CARMA Workflow Page
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[[http://wiki.na-mic.org/Wiki/index.php/DBP3:Utah:RegSegPipeline  CARMA Wokflow Preprocessing Pipeline]] CARMA Wokflow Preprocessing Pipeline
  
 
==Delivery Mechanism==
 
==Delivery Mechanism==

Latest revision as of 19:33, 24 June 2011

Home < Summer project week 2011 Workflows SOA

Workflows and Service Oriented Architecture Modules for Slicer4 as Extensions

Key Investigators

  • Brigham and Womens Hospital, Harvard Medical School: Alexander Zaitsev, Wendy Plesniak, Charles Guttmann, Ron Kikinis


Objective

  1. Thin clients for Slicer4 to support standardized workflows
    Automation of image processing steps, data management
    Combination of automated methods with human activities
    Case Studies: Left Atrial Ablation follow-up, Brain PET/CT/MRI scans processing for cancer treatmen follow-up, brain atrophy estimation
    Major methods/algorithms used by workflows: Registration (BRAINSFit, BRAINSResample), Biasfield correction

Approach, Plan

  1. Trying to build existing thin clients (Slicelets)
    as Slicer4 Extensions.
    Add Left Atrium Ablation scar segmentation into the CARMA workflow (RSS or LA Segmenter?)
    Incorporate MS Lesion EM Segmentation Scenario into the workflows

Progress

Slicer4 Extensions and Custom Builds:
Learned how to do. Have to deal with package build for 32-bit Mac
CARMA workflow:
Gave several Life demos (including) general SOA/workflows approach. Identified ergonomic to be addressed in CARMA WF GUI
Segmented hyperintencity regions at left atrium wall (RSS module). Issue: overestimation, need to add more thresholding controls to RSS.
MS Lesion Segmentation
Worked with EM Segmenter module builders on adult and pediatric cases segmentation
Lesion overestimation have to be addressed: can be done with manual correction
Long running pre-processing steps make SOA/WF approach preferable for Lesion Segmentation

  • Manual Segmentation Sample(Utah Team)

  • RSS Segmentation Attempt

[Winter_project_week_2011_Workflows_SOA] Winter 2001 Project Week Page
[Left Atrium Ablation Project, CARMA Wokflow] CARMA Workflow Page

[CARMA Wokflow Preprocessing Pipeline] CARMA Wokflow Preprocessing Pipeline

Delivery Mechanism

This work will be delivered to the NAMIC Kit as a

    1. Built-in:
    2. Extension -- commandline:
    3. Extension -- loadable:
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