Patrick

Primary goal: Bump and dent identification on IC images
Accomplishments
- Traveled to SSRL to view the acquisition and meet with Greg and Mike.
- Modified the GenerateFeatures application to handle the input of arbitrary feature images
- Using the previous features and Casey's new patch-based features, was able to achieve 95% pixel level accuracy in Weka and 23/25 defects found with 0 false positives in image space (after morphology).
- Explore new features
  - evaluate a variety of standard deviations for intensity and ridge computations
Near Term (Aug 2)
- Receiving code to simulate the tomography directly on GDS Layers
- Compute dot-product between line (hessian) tangent and normal directions in ES and GDS images
- Subselect features
- Product: ~ 5 slides / report to USC illustrating path chosen, strengths, and weaknesses.
  - Real-world tests / workflow
  - Does a trained classifier work on other layers?
  - Does a trained classifier work on other acquisitions?
    - i.e., do we need to insert modifications for training on every slice / acquisition / ?
    - Normalizing for inter-acquisition (or inter-slice) variations?
- Work with new collaborator at Kitware.
Medium term (August 15)
- Delivery and education
- Can we get better in simulation?
- Connectivity analysis

Casey

Primary goal: Data from Duke for BWH
Accomplishments
- Data from Duke
  - Contacted several folks to gather information ( we had

questions regarding the machine at Duke) and check status.

- - - BrainLab: Contacted Pratik. He is working on getting us VV license
    - Duke: Contacted Tanya and learned that SD-5000 ultrasound machine is not integrated with the BrainLab system. The machine is used to acquire ultrasound data independently.
    - Aloka: Contacted John Walsh at Aloka and learned that SD-5000 is very old model and doesn't come with research interface
  - Based upon the conversation I had with you, may be we should probably look into saving data off the BrainLab system itself not bother with the SD-5000.
- Write IJ article
  - Hua and I have made progress writing the IJ article. Hua helped me a lot generating results using synthetic data. We have now a solid outline and some write up in most of the sections. We will add more texts, figures and results and clean it up more. I will also put together self-contained source code tree containing the classes that we will submit with this paper Please see attached the latest version.
  - You can also access the tex, bib, etc files in my Work directory: Work/Andinet/TensorIJ
Near term (August 2)
- Move article to TubeTK/Documentation/2010.TensorIJ
  - Cite grant proposal in article
- Install VV at Duke
Medium term (August 9)

Primary goal: ultrasound image processing
Accomplished
- Correct a bug in itkAnisotropicHybridDiffusionImageFilter, and prepared figures for Andinet's Insight Journal paper.
- Improve code coverage for uncovered filters under Application/CLI/** Increase coverage of TubeTK
Near term (August 2)
- Update registration code
- Begin investigation of registration metrics that depend on ultrasound probe orientation
  - Get data from InnerOptic
    - http://www.insight-journal.org/midas/item/view/2206
    - http://www.insight-journal.org/midas/item/view/117
Medium term (August 16)
- Investigate use of speckle in ultrasound registration
- Model-based deformation field interpolation