From Slicer Wiki
Revision as of 19:51, 10 July 2015 by Pinter (talk | contribs) (Created)
(diff) ← Older revision | Latest revision (diff) | Newer revision → (diff)
Jump to: navigation, search
Home < Documentation < Nightly < Modules < Segmentations

For the stable Slicer documentation, visit the 4.10 page.

Introduction and Acknowledgements

This work is part of the SparKit project, funded by An Applied Cancer Research Unit of Cancer Care Ontario with funds provided by the Ministry of Health and Long-Term Care and the Ontario Consortium for Adaptive Interventions in Radiation Oncology (OCAIRO) to provide free, open-source toolset for radiotherapy and related image-guided interventions.
Author: Csaba Pinter (PerkLab, Queen's University)
Contact: Csaba Pinter, <email></email>
Back to SlicerRT home

Cancer Care Ontario  
Software Platform and Adaptive Radiotherapy Kit  
Ontario Consortium for Adaptive Interventions in Radiation Oncology  

Module Description

The Segmentations module manages segmentations. Each segmentation can contain multiple segments, which correspond to one structure or ROI. Each segment can contain multiple data representations for the same structure, and the module supports automatic conversion between these representations (the default ones are: planar contour, binary labelmap, closed surface model), as well as advanced display settings and import/export features.

Use Cases

  • 3D printing: Convert labelmaps to surface models and export them to STL
  • Contour analysis: Convert RT planar contours to labelmap for per-voxel analysis
  • Nice and flexible visualization: Show any structure as 3D surface, and line intersections in 2D views; Show surface and labelmap simultaneously
  • Organize segmented structures: Each segmentation contains multiple "segments"
Contours module GUI
Contours representations



How to

Create segmentation from scratch
Create segment from labelmap volume or model
Export labelmap or surface model representation from a segment (for editing, saving to STL, etc).
First make sure the representation is present (TODO)
Edit an existing contour
See page via link above !!!TODO!!!

Panels and their use

  • TODO

Similar Modules

This module and infrastructure is a successor of the Contours module and mechanism, which was the first implementation for this task, but its design was overgrewn by the new features and needs, and became inconvenient and unstable. Further information about the Segmentation effort on the related Assembla ticket and wiki page, and the links pointing from these pages.


  • wiki page
  • Past references
    • Issue for Segmentations (complete Contours overhaul, delivery June 2015) here
    • Issue for original Contours effort on SlicerRT Assembla ticketing system here

Information for Developers

  • Labs page TODO


The closed surface generated from the RTSS contour points is flawed
TODO (report issue, ribbon workaround)