Difference between revisions of "DBP3:Utah:AutoEndoSeg"

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* Uses the ITK mutual information code.  Does affine registration followed by b-spline
 
* Uses the ITK mutual information code.  Does affine registration followed by b-spline
 
* We will partner with Yi for module development at the Jan 2012 project week
 
* We will partner with Yi for module development at the Jan 2012 project week
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 +
= Initial Experiences =
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* Comparison of Yi and Utah-derived segmentations
 +
(click to enlarge)
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{| class="wikitable"
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|-
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! GA Tech Segmentation
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! Utah Segmentation
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! Thresholding Difference
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|-
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| [[File:CARMA_GAT_Endo.png|thumb|center]]
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| [[File:CARMA_UT_Endo.png|thumb|center]]
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| [[File:CARMA_Diff_Endo.png|thumb|center]]
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|-
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| Segmentation of an atlas image by GA Tech, using their endocardial auto-segmentation algorithm.
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| Segmentation of the same image with the same algorithm by Utah.
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| User-based variability in thresholding the probability mask output.  (Green region - Utah; white region - GA Tech).
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|-
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|}
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= Larger Atlas Images =

Revision as of 08:30, 29 November 2011

Home < DBP3:Utah:AutoEndoSeg

Notes on the Endocardial Segmentation Algorithm

Algorithm is a multi-atlas segmentation.

  1. Register (cropped) heart region of patient DEMRI to all of the n atlas DEMRI images and record n minimum metric values (mutual information)
  2. Transform all n atlas segmentations to patient DEMRI space
  3. Segmentation is a weighted average of the transformed atlas segmentation, where weights are determined by the mutual information values from step 1
  4. Pick a threshold as your segmentation

Notes on Yi's Slicer Module

  • The exposed parameter is the ratio of pixel samples for mutual information to the total number of pixels in the image.
  • We could also expose the threshold parameter in the final step
  • We can change or add atlas datasets by copying into the appropriate directory and editing the text file that lists them
  • Uses the ITK mutual information code. Does affine registration followed by b-spline
  • We will partner with Yi for module development at the Jan 2012 project week

Initial Experiences

  • Comparison of Yi and Utah-derived segmentations

(click to enlarge)

GA Tech Segmentation Utah Segmentation Thresholding Difference
CARMA GAT Endo.png
CARMA UT Endo.png
CARMA Diff Endo.png
Segmentation of an atlas image by GA Tech, using their endocardial auto-segmentation algorithm. Segmentation of the same image with the same algorithm by Utah. User-based variability in thresholding the probability mask output. (Green region - Utah; white region - GA Tech).


Larger Atlas Images