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Vision REU Week 2. Ben Schoepke. Research. MR physics and terminology Found paper that attempted both tumor and edema segmentation.

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Presentation Transcript
research
Research
  • MR physics and terminology
  • Found paper that attempted both tumor and edema segmentation

Corso, JJ, Sharon, E., Yuille, A.: Multilevel segmentation and integrated bayesian model classification with an application to brain tumor segmentation. MICCAI 9 (2) (2006) 790-8

T1

T1E

T2

FLAIR

Ben Schoepke REU Week 2 6/1/07

experimentation
Experimentation
  • Obtained MR images from multiple patients

Ben Schoepke REU Week 2 6/1/07

experimentation1
Experimentation
  • Noticed only major difference between T1 and FLAIR was edema

T1

FLAIR

Ben Schoepke REU Week 2 6/1/07

experimentation2
Experimentation
  • Initial algorithm: subtract T1 pixels from FLAIR

FLAIR

T1

Ben Schoepke REU Week 2 6/1/07

experimentation3
Experimentation
  • Initial algorithm: subtract T1 pixels from FLAIR
  • Use Otsu’s auto-thresholding method:

Flair – T1 image with Otsu threshold applied

Result overlayed on FLAIR image

Ben Schoepke REU Week 2 6/1/07

problems
Problems

Edema not well defined

T1

FLAIR - not edema?

Ben Schoepke REU Week 2 6/1/07

establishing ground truth
Establishing ground truth

Ben Schoepke REU Week 2 6/1/07

next week
Next week
  • Start using ITK
  • Implement mutual information-based image registration

Source: Eric and Pinkung’s paper

Ben Schoepke REU Week 2 6/1/07

next week1
Next week
  • Experiment with different segmentation techniques

Source: ITK documentation

Geodesic active contours segmentation

Original image

Canny-edge level set segmentation

Ben Schoepke REU Week 2 6/1/07