Internal:CNF Workshop

CNF Workshop

1. 08/19/19 Presentations

Nikos Chrisochoides

• Leverage from computational methods from medical imaging for processing phase space distributions in Nuclear Femtography
• Enable next generation process simulations
• Bring jobs to Virginia
• “Usefulness of Useless Knowledge” by Flexner

Bob McKeown

• Femtography 2019 ML & Revealing the internal structure of Nucelon & Nuclei
• See pic JLab Mission
• Nuclear Femtography
  • High luminosity
  • Polarized beams and targets
  • Sophisticated detector systems
• Nature publications
  • Ultrafast Nucleons in Asymmetic Nuclei
  • …
• Virginia Center for Nyclear Femtography
  • 7/14 joint lab/university initiatives funded
• Proposed JLab electron Ion Collider (see pic)
• EIC Users Group (see pic)
• EICUG 2019
• Current Status and Path forward of EIC (see pic
• JLab has electron collider, NY Brookhaven has ion collider
  • Both need to construct the other half

Gail Dodge

• Partnership between ODU and JLab in 90’s
• 12 tenure track faculty
• 6 JLab professors
• ODU faculty intellectual leadership in research programs in JLab
• Bring together scientists from different fields
• ODU has hired ~6 data science faculty
• Need help to learn how to involve people from different disciplines

David Richards

• “Understanding the Glue That Binds Us All: The Next QCD Frontier in Nuclear Physics”
• See slide 6 for those that submitted proposals
• Synergy across fields
  • Astrophysics
  • Machine Learning
• Call for proposal late September
  • External Evaluation Committee
• CNF Symposium at ODU early 2020

Christian Weiss

• Imaging technologies in computation
• Subnuclear systems
  • Scales
  • Scattering experiments
• Workflow inmeasurements
• Tesselation
• Scales
  • Organisms- Cells
  • Molecular - Atoms
  • Nuclear - Subnuclear
• Mission: Explore subnuclear systems
  • Strong interaction : quarks,gluons
  • Understand proton neutron as emergent phenomena
• Interest
  • Basic building blocks of matter
  • nuclear structure and reactions, nuclear energy
• Subnuclear systems
  • Unusual dynamical system
  • Relativity: Energy = mass, conversion processes. Proton is ‘cauldron’ filled with radiation energy and matter/antimatter
  • Only average properties are measurable: densities,correlations
• Scattering experiments
  • Electrons collide on protons
  • Scatterings are gathered from detectors
  • JLab 12GeV accelerators
  • Information Recorded:
    • Distribution based on type and momentum -> Phase space distributions
    • The “expression” of proton’s internal structure
    • 10^6 - 10^9 experiments in JLab
• Workflow: Measurements
  • Theory: Model of proton structure (parameters that need to be verified experimentally)
  • Predicitions for scattering probabilities
  • Phase space distributions (meeting ground between theory and experiments)
  • Scattering Experiments -> Raw Data
  • Reconstruction baseed on the raw data
  • Modify theoretical model based on observations
  • "Final" picture of proton from synthesis of multiple experiments and theoretical models
• Phase space distributions
  • Use imaging techniques(e.g tesselation)
  • 10^6 -10^9 experiments
  • View distributions, projections, cuts, features
  • Compare distributions
  • Interpolate refine distributions for simulations
  • With ODU
    • Tesselated representation
    • compact memory-efficient representations
    • Efficient interpolation/refinement for MC simulations
    • Visualize the gamma ray points that were detected by the detector + the density of energy
• Proton Structure:
  • Imaging for vizualitation of subnuclear system
  • Image concept for relativistic quantum system
  • Synthetic image from theory and multiple experiments
  • Spatial size, internal motion of quarks
  • Tesselated representation

Ron Kikinis

• 3D Slicer
• Browser based versions
  • ohif.org
  • openanatomy.org
• SlicerAstro
  • Use of Slicer3D in astronomy
• Punzo et al 2015

Neurosurgery

• In the past doctors would infer where the problem is by the symptoms. They would then open the brain and see if they were right
• Now: Brain organization -> functional connectivity
• Functional MRI measures blood flow
• Diffusion Tensor Imaging the only method for imaging tensors
• Combine fMRI with MEG or fMRI with MRI
• VR to prepare for operation
• AR to help annotate points of interest on the brain

1. 1. Steve Pieper - New software - Keep using the best software we have - Open source - Reproducible science - 3D Slicer with - Python - Tensorflow - Numpy, pandas, scipy… - Wrapper API - Extensions marketplace - VR Support - Remote Rendering - Jupyter Notebook support - OHIF Viewer - Browser based medical image viewer - VTK.js - Crowds-cure.org - GPU Segmentation (Grow cut algorithm)

Tina Kapur

• Discourse Forum
• Project Week Event
• projectweek.na-mic.org

Andriy Fedorov

• “Your source code is your data”, NVIDIA CEO
  • For reproducibility for example
• National Cancer Institutr Quantitative Imaging Network
  • Goal: Transalte quantitative imaging methods and algorithms as clinical decision support tools into clinical utility
• DICOM includes metadata that can help to interpret images
  • Unique identifiers
  • Helps to query your data
  • TCIA (Cancer Imaging Archive) :Collection of medical images
• NCI Cancer Research Data Commons