TubeTK/Documentation/InteractivePDFSegmenter

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Revision as of 02:39, 7 January 2011 by 97.65.130.163 (talk)
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Documentation

TODO: insert algorithm description here

Tutorial

Tutorial Data

  • The 2D brain image used in this example is distributed as part of Slicer4, and is located in Slicer4/Testing/Data/Input/brainSliceDOUBLE.mha

Tutorial Steps

  1. Load brainSliceDOUBLE.mha:
    • File -> Add Volume
  2. Open the Interactive PDF Segmenter module
  3. Set the input and output volumes
    • Input Volume 1: brainSliceDOUBLE
    • Input Volume 2 (optional): None
    • Input Volume 3 (optional): None
    • Output Volume: Create new volume
      • Creates a new volume called "Volume": this will hold the final segmentation
  4. Set the view layout to "Red slice only"
  5. Create the label map roughly outlining the structures to be segmented and the background
    • Label Map: Create new volume
      • Creates a new volume called "Volume1": this will hold the input label map
    • A small version of Slicer's Editor module is embedded into the Interactive PDF Segmenter
    • Create a label map roughly outlining the structures of interest and the background by using the paint, erase and threshold functions
      • Click on the "Paint" button to begin editing
      • Use a different label color for each structure of interest: choose the label by clicking the colored push button
      • Create a label for the background as well
    • In the following example, green represents gray matter, yellow represents white matter, and brown represents the background