CIBC:Seg3D:Documentation:Design

Seg3D Design

Concept

Diagram describing dataflow in the app.

• 3D analog to Photoshop
• Work with multiple volumes simultaneously
• Volumes are organized in Layers
• Layers may be visualized separately or as blended overlays
• Each layer is assigned its own color map
• Layers may be piped to Filters (ITK or other)
• Filter output is piped back into a new Layer
• Any number of Label Layers may be created
• Label Layers are bit masks that represent a hierarchy of binary segmentations
• Segmentations are either produced manually by slice-by-slice painting, or produced using Filter operations.
• File IO via ITK (Analyze, DICOM, Nrrd, MetaImage, tiff, jpeg, png, and more)
• Users may save work in sessions and reload

Hand Contouring / Painting

• Each label represented as 1-bit in memory
• Respects logical operations (AND, OR, NOT, etc)
• Heierarchical label management
• Ontologies may be enforced by mapping to these logical operations

Image Processing and Segmentation

• ITK Filters, Teem Filters, & custom filters
• Focus on integration of filters versus simple wrapping
  • Integrated with the manual segmentation interface
  • Real-time visualization of automated processing
  • Minimize number of parameters that need to be exposed to user

Visualization

• Customizable 2D layouts (specified by XML)
• 3D slice views with isosurfacing
• Real-time volume rendering