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

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Image:PW-MIT2012.png|[[2012_Summer_Project_Week#Projects|Projects List]]
 
Image:PW-MIT2012.png|[[2012_Summer_Project_Week#Projects|Projects List]]
Image:iGyne-version 0521-registration.png|Screenshot of Registration
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Image:gyn-needle-segmentation-1.png | Screenshot of Manual Needle Segmentation (20 minutes)
Image:iGyne.png|Screenshot of Needle Visualization
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Image:Needle-TractographyFiducialSeeding.png | Screenshot of Single Needle Modeled With Tractography Fiducial Seeding Module
Image:iGyne-version 0521.png|Screenshot of Tumor and Needle Visualization
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Image:Needle-TractographyFiducialSeeding2.png | Screenshot of Multiple Needles Modeled With Tractography Fiducial Seeding Module (Hessian Image Visible)
 
</gallery>
 
</gallery>
  
 
==Key Investigators==
 
==Key Investigators==
 
*Rutgers: Nabgha Farhat
 
*Rutgers: Nabgha Farhat
* SPL: Nabgha Farhat, Jan Egger, Tina Kapur, Steve Pieper
+
*BWH: Yi Gao, Xiaojun Chen, Neha Agrawal, Nabgha Farhat, Jan Egger, Tina Kapur, Akila Viswanathan
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*Isomics: Steve Pieper
  
 
<div style="margin: 20px;">
 
<div style="margin: 20px;">
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<h3>Progress</h3>
 
<h3>Progress</h3>
 +
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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
  
  
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==Delivery Mechanism==
 
==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)
+
N/A
 
 
#ITK Module
 
#Slicer Module -
 
##Built-in -
 
##Extension -- commandline
 
##Extension -- loadable YES
 
#Other (Please specify)
 
 
 
  
 
==References==
 
==References==

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