Scmr2013 - Segmentation Probability Variables for MRI in EnSight 10.0.2

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Scmr2013 - Segmentation Probability Variables for MRI in EnSight 10.0.2

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Visualizing blood flow in a patient is improved by adding segmentation information (blood vessels) obtained from the Mimics program and included in the EnSight visualization software.

Visualizing blood flow in a patient is improved by adding segmentation information (blood vessels) obtained from the Mimics program and included in the EnSight visualization software.

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  • 1. NEW! Segmentation ProbabilityVariables for MRI in EnSight 10.0.2
  • 2. Problem• EnSight doesn’t have segmentation capability• Creating Clip planes and calculating flow is hardin EnSight because the clip planes don’t move butthe heart and blood vessels do. So EnSight isbeing used mostly only for visualization.• EnSight data is being dumped to Matlab to makecalculations that EnSight is perfectly capable ofdoing if there was segmentation information inEnSight.• Solution: Use Mimics segmentation info inEnSight.
  • 3. Velocity MRI Data Process• Bring velocity data from MRI into EnSight• MRI > Matlab/scripts > EnSight is the process forvelocity data. Matlab/scripts come from NorthwesternU., U of Wisconsin, Linkoping U., Stanford, U. C. SanFrancisco or other existing EnSight user base.• EnSight Case File is produced which has volume andvelocity variable.MRI MatlabMatlabScriptsEnSight
  • 4. Improved MRI Data Process• Bring segmentation from Mimics into EnSight• MRI > Matlab/scripts > EnSight is already theprocess for velocity data.• Probability of aorta, or other structure is anadded variable to the EnSight files.MRI Mimics Translator EnSight
  • 5. Process Steps• Mimics segmentation .txt output• EnSight .geo (geometry) file, and velocityvariable files• Free translator from CEI• ====================• New Variable(s) file for EnSight dataset
  • 6. Variable ExamplesVariable Name File Name TypeAorta Aorta.var Scalar per nodeAorta_dialated Aorta_dialated.var Scalar per nodePulmo Pulmo.var Scalar per nodePulmo_dialated Pulmo_dialated.var Scalar per node
  • 7. NEW! Segmentation ProbabilityVariables for MRI in EnSightTo make this image,1) isosurfaced a field2) changed the lightingto smooth3) Use SmoothMesh() togenerate a displacement map(this removes "mesh imprinting"artifacts).
  • 8. What are these Variables?• Segmentation Probabilities.• Can be used for visualization or calculations• Clips, Isosurfaces• Calculations– Flow, etc
  • 9. Static or Transient/Dynamic• This process works for a single timestep or atransient timeset.• So moving segmentation surfaces are not aproblem and the probabilities updateautomatically over time.
  • 10. Segmentation Probability Variables inEnSight• Availability: Immediate• The translator source code and instructions isavailable for free from CEI. Contacteric@ceisoftware.com for a copy.
  • 11. AcknowledgementsMimics is from Materialise in Belgium• http://biomedical.materialise.com/mimicsEnSight is from CEI in Apex, NC, USA• www.ceisoftware.com• We are CEI.