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 | ||
+ | |||
+ | = Initial Experiences = | ||
+ | * Comparison of Yi and Utah-derived segmentations | ||
+ | (click to enlarge) | ||
+ | |||
+ | {| class="wikitable" | ||
+ | |- | ||
+ | ! GA Tech Segmentation | ||
+ | ! Utah Segmentation | ||
+ | ! Thresholding Difference | ||
+ | |- | ||
+ | | [[File:CARMA_GAT_Endo.png|thumb|center]] | ||
+ | | [[File:CARMA_UT_Endo.png|thumb|center]] | ||
+ | | [[File:CARMA_Diff_Endo.png|thumb|center]] | ||
+ | |- | ||
+ | | 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 = |
Revision as of 08:30, 29 November 2011
Home < DBP3:Utah:AutoEndoSegContents
Notes on the Endocardial Segmentation Algorithm
Algorithm is a multi-atlas segmentation.
- Register (cropped) heart region of patient DEMRI to all of the n atlas DEMRI images and record n minimum metric values (mutual information)
- Transform all n atlas segmentations to patient DEMRI space
- Segmentation is a weighted average of the transformed atlas segmentation, where weights are determined by the mutual information values from step 1
- 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 |
---|---|---|
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). |