Difference between revisions of "2013 Winter Project Week:InteractiveSegmentation"

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==Key Investigators==
 
==Key Investigators==
  
Name, Institute
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Peter Karasev, GT/UAB;  Ivan Kolesov, GT/UAB;  Allen Tannenbaum, UAB; Phillip Mitchell, Emory;  John Xerogeanes, Emory
  
 
==Project Description==
 
==Project Description==
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Video Demo 1: Femur Epyphisis [http://youtu.be/gW675lEOByc (youtube link)]
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Video Demo 2: Brain White + Grey matter [http://youtu.be/buodA3FiAsQ (youtube link)]   
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<h3>Objective</h3>
 
<h3>Objective</h3>
*  
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* Improve Slicer interactive segmentation workflow
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* Add useful integral-like functionality to Slicer that have been useful in external matlab/c++
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* Port new theoretical developments into Slicer segmentation tool
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* Add coupled interactive level sets, use coupling matrix that pivots on the "active" surface
 
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<h3>Approach, Plan</h3>
 
<h3>Approach, Plan</h3>
*  
+
* Verify lack of current integral functions in Slicer
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* Integrate bug fixes from Ivan Kolesov and Karl Fritscher
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* Try to separate CLI-like functions in interactive segmentation tool into separate own modules
 
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<h3>Progress</h3>
 
<h3>Progress</h3>
*  
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* bugfix for vanishing contour when image is ~constant or very noisy
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* generate and [https://github.com/pkarasev3/kslice/tree/master/data  some synthetic data to stress the segmentor]
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* gained some better understanding of python modules, planning on having kslice get instantiated from python script, although this might be limited to linux/mac.
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* see video demo 1 above; very tight coupling with QT, VTK, user feedback/display.
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* with integration functions, technically Slicer python + numpy can do this but requires a programmer with python knowledge. Prototyped a small parser for matlab-like syntax to be applied to Volumes in Slicer.
 
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Latest revision as of 16:27, 11 January 2013

Home < 2013 Winter Project Week:InteractiveSegmentation


Key Investigators

Peter Karasev, GT/UAB; Ivan Kolesov, GT/UAB; Allen Tannenbaum, UAB; Phillip Mitchell, Emory; John Xerogeanes, Emory

Project Description

Video Demo 1: Femur Epyphisis (youtube link)

Video Demo 2: Brain White + Grey matter (youtube link)


Objective

  • Improve Slicer interactive segmentation workflow
  • Add useful integral-like functionality to Slicer that have been useful in external matlab/c++
  • Port new theoretical developments into Slicer segmentation tool
  • Add coupled interactive level sets, use coupling matrix that pivots on the "active" surface

Approach, Plan

  • Verify lack of current integral functions in Slicer
  • Integrate bug fixes from Ivan Kolesov and Karl Fritscher
  • Try to separate CLI-like functions in interactive segmentation tool into separate own modules

Progress

  • bugfix for vanishing contour when image is ~constant or very noisy
  • generate and some synthetic data to stress the segmentor
  • gained some better understanding of python modules, planning on having kslice get instantiated from python script, although this might be limited to linux/mac.
  • see video demo 1 above; very tight coupling with QT, VTK, user feedback/display.
  • with integration functions, technically Slicer python + numpy can do this but requires a programmer with python knowledge. Prototyped a small parser for matlab-like syntax to be applied to Volumes in Slicer.