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==Image segmentation==
 
==Image segmentation==
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The instructibles tutorial describes in [http://www.instructables.com/id/Edible-Chocolate-Brain-from-MRI-Scan/step2/DICOM-Data-Model-Export/ step two] how to "select only the brain" with tissue thresholding using InVesalius. The slightly more sophisticated approach would be to use 3d image segmentation algorithms like [http://www.fmrib.ox.ac.uk/fsl/bet2/index.html FSL's BET], which is nicely re-implemented in [http://neuro.debian.net/pkgs/bioimagesuite.html#pkg-bioimagesuite BioImage Suite] or [http://groups.csail.mit.edu/vision/medical-vision/SkullStripping/SkullStripping.html the watershed algorithm] (the videos are awesome) which is implemented in [http://neuro.debian.net/pkgs/freesurfer.html#pkg-freesurfer Freesurfer].  
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The instructibles tutorial describes in [http://www.instructables.com/id/Edible-Chocolate-Brain-from-MRI-Scan/step2/DICOM-Data-Model-Export/ step two] how to "select only the brain" with tissue thresholding using InVesalius. The slightly more sophisticated approach would be to use 3d image segmentation algorithms like [http://www.fmrib.ox.ac.uk/fsl/bet2/index.html FSL's BET] or [http://groups.csail.mit.edu/vision/medical-vision/SkullStripping/SkullStripping.html the watershed algorithm] (the videos are awesome), which is nicely implemented in [http://neuro.debian.net/pkgs/bioimagesuite.html#pkg-bioimagesuite BioImage Suite] and less nicely implemented in [http://neuro.debian.net/pkgs/freesurfer.html#pkg-freesurfer Freesurfer].  
  
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The approach described in the Instructibles article is a manual approximation of [http://en.wikipedia.org/wiki/Region_growing region-growing]. I am personally still fond of FSL's BET algorithm, which is substantially less elegant, but has [https://picasaweb.google.com/lh/photo/uzKNkaBtZYXOYpO-10w8gdMTjNZETYmyPJy0liipFm0?feat=directlink awesome errors].
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The approach described in the Instructibles article is a crude implementation of the watershed algorithm, which is a very elegant image segmentation algorithm. I am personally still fond of FSL's BET algorithm, which is substantially less elegant, but has [https://picasaweb.google.com/lh/photo/uzKNkaBtZYXOYpO-10w8gdMTjNZETYmyPJy0liipFm0?feat=directlink awesome errors].
  
 
==3D Printing==
 
==3D Printing==

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