3D Image Segmentation Software


TurtleSeg is an interactive 3D image segmentation tool. Accurate and automatic 3D medical image segmentation remains an elusive goal and manual intervention is often unavoidable. TurtleSeg implements techniques that allow the user to provide intuitive yet minimal interaction for guiding the 3D segmentation process. A key feature of TurtleSeg is Spotlight, an automated system for automatically directing the user towards the next best place for them to provide input. With Spotlight, there is very little need for the user to understand the underlying algorithm used. A typical workflow involves having the user load a 3D image and then use 2D Livewire to manually contour a sparse number of different slices. The full 3D segmentation can then be built automatically using the user-provided information.

TurtleSeg's Spotlight technology automatically guides you to problematic regions of the current segmentation.


  • Spotlight automated assistance for guiding users towards better segmentations. With Spotlight, TurtleSeg learns as you segment

  • Imports and exports many 3D file formats, including DICOM and ready-for-3D-printing STL files (list)

  • Segments many different anatomy, such as brain structure, lungs, bone (see Gallery) and other objects in many different modalities such as MRI and CT

  • Intuitive and easy to use interface (See Videos)

  • Natural 3D navigation with support for oblique slice planes (See Views video tutorial)

  • Multi-level undo/redo support

  • Export the segmentation as an image mask or surface mesh

  • Full contour editing support makes fixing mistakes easy

  • Support for multi-label segmentation (See Multiple Object Segmentation video tutorial)

  • Extensive documentation in the form of a Manual, FAQ, and Video Tutorials

  • Available for Windows and Mac




If you find TurtleSeg useful for your work, please consider citing our publications



TurtleSeg was originally developed at the Medical Image Analysis Lab (MIAL) at Simon Fraser University and the Biomedical Signal and Image Computing Laboratory (BiSICL) at the University of British Columbia (by Prof. Ghassan Hamarneh, Prof. Rafeef Abugharbieh, and M.Sc. student Andrew Top). Named after the 3D TurtleMap algorithm, TurtleSeg provides accurate 3D image segmentation from minimal and intuitive user input. A fast workflow is enabled by the automatic active-learning Spotlight recommendation technology. For more information, please consult our webpage.

TurtleSeg is a proprietary software owned by Oxipita Inc. For any further information please contact us using the form below.

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