Feb 24, 2016
JPEG Image Compression
All of the Gory Details
Biological ImagingRoss Whitaker
University of Utah
Clinical Imaging• Paradigm
– Diagnosis/prognosis (individuals)
– Radiologists/experts• Trends
– More/larger datasets (+3D)
– Surgery/planning– Quantification
QuickTime™ and aTIFF (Uncompressed) decompressor
are needed to see this picture.
QuickTime™ and aTIFF (Uncompressed) decompressor
are needed to see this picture.
Biological Imaging• Understanding organisms/populations• Growth–explosive
– Trends: instrumentation + science• Very large datasets
– E.g. terabytes – Acquisition times
• Paradigm– Quantification/exploration– Desperate need of tools
Biological Imaging Examples
• Mouse phenotyping – M. Capecchi
• Retinal mapping – R. Marc
The Capecchi Laboratory
• Knock-out mouse– Mouse as test tube
for genetics• Understanding the
effects of particular genes
• Mutations to study mouse-bat relationships– Skeleton
Mouse Phenotyping• State of the art
– Dozens of animals– Dissection, etc.
• Future– Hundreds/thousands
of animals– 3D imaging (MRI,CT)
Image-Based PhenotypingA Significant Engineering Challenge
ImagesAtlas/protoype
MutantsImages
Geometric/StatisticalAnalysis
Mutants
Imaging•Reconstruction•Image processing (denoising)
Shape & Deformation•Atlas/image registration•Statistics of shape/deformation
•Fundamental questions•Visualization
•Algorithm development and tuning•End user
Atlases/Prototypes•Image Registration
•Scale of problem•Deformation vs articulation
•Modeling•Representing variability •Structures or pixels
•Segmentation•User interaction/visualization•Automation–Computer Vision
Marc Laboratory
Retinal Mapping
•Mosaicing•Distortion and position•Very large images (100mps)
•Filtering and segmentation•Noise, texture
•3D tracking
Visualization in Biological Imaging
• As a visual front end for other tools– User assisted analysis
• Exploration– Heterogeneous data– Large databases
• Interpretation– Statistics (high dimensions)– Anatomical variability
Done