Difference between revisions of "2012 Summer Project Week:Interactive Needle Segmentation"

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==Key Investigators==
 
==Key Investigators==
 
*Rutgers: Nabgha Farhat
 
*Rutgers: Nabgha Farhat
*BWH: Yi Gao, Xiaojun Chen, Neha Agrawal, Nabgha Farhat,  Jan Egger, Tina Kapur
+
*BWH: Yi Gao, Xiaojun Chen, Neha Agrawal, Nabgha Farhat,  Jan Egger, Tina Kapur, Akila Viswanathan
 
*Isomics: Steve Pieper
 
*Isomics: Steve Pieper
  
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<h3>Progress</h3>
 
<h3>Progress</h3>
  
Needles were effectively modeled from pelvic MRI scans using the Tractography Fiducial Seeding module:
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Needles were effectively modeled from pelvic MR scans using the Tractography Fiducial Seeding module:
*Scans were cropped to the region of interest
+
*Hessian images were generated from the MR scans
*Hessian images were generated from this data
 
 
*Fiducials were placed in regions known to be part of a needle
 
*Fiducials were placed in regions known to be part of a needle
 
*The Tractography Fiducial Seeding module was used to generate “tracts” that pass through the fiducial – in this case, the needles  
 
*The Tractography Fiducial Seeding module was used to generate “tracts” that pass through the fiducial – in this case, the needles  
 
Refinements need to be made to optimize the modeling for brachytherapy needles rather than fiber bundles:
 
Refinements need to be made to optimize the modeling for brachytherapy needles rather than fiber bundles:
 
*A sense of “momentum” is needed, so that needles do not abruptly end or change direction in signal voids
 
*A sense of “momentum” is needed, so that needles do not abruptly end or change direction in signal voids
*Existing needle and template models (eg, from iGyne) may also be incorporated
+
*Eventually, we would like the whole workflow to take place in Slicer, including the generation of the hessian image
  
  

Latest revision as of 02:20, 26 June 2012

Home < 2012 Summer Project Week:Interactive Needle Segmentation

Key Investigators

  • Rutgers: Nabgha Farhat
  • BWH: Yi Gao, Xiaojun Chen, Neha Agrawal, Nabgha Farhat, Jan Egger, Tina Kapur, Akila Viswanathan
  • Isomics: Steve Pieper

Objective

The goal of this project is to achieve fast (< 2 minute) interactive segmentation of 5-10 needles from MRI images using Slicer.


Approach, Plan

We will explore different segmentation/editing tools in Slicer to determine which ones can most efficiently segment 2mm needles (10-15 cm long), from MRI scans in which voxels are about 2mm in each dimension. (These needles are not straight lines, and are often placed within a few mm of each other.)

Progress

Needles were effectively modeled from pelvic MR scans using the Tractography Fiducial Seeding module:

  • Hessian images were generated from the MR scans
  • Fiducials were placed in regions known to be part of a needle
  • The Tractography Fiducial Seeding module was used to generate “tracts” that pass through the fiducial – in this case, the needles

Refinements need to be made to optimize the modeling for brachytherapy needles rather than fiber bundles:

  • A sense of “momentum” is needed, so that needles do not abruptly end or change direction in signal voids
  • Eventually, we would like the whole workflow to take place in Slicer, including the generation of the hessian image


Delivery Mechanism

N/A

References