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Gallery of New Features

Module Name

Python Surface Connectivity

User Interface
Figure 1: Clipped model of ICA aneurysm
Figure 2: Connnected region closest to user-specified seed is extracted
Figure 2: All connected regions are extracted and one seed is generated for every region

General Information

Module Type & Category

Type: CLI

Category: Surface Models

Authors, Collaborators & Contact

  • Luca Antiga: Orobix Srl, Mario Negri Institute
  • Daniel Blezek: Mayo Clinic
  • Contact: Luca Antiga,

Module Description

This Python module takes in input a surface and labels it according to surface connectivity. The module either labels the surface with a different RegionId for each connected region, or it extracts the connected region closest to an input fiducial. Optionally, the module produces a list of fiducials positioned on each connected region and labeled with its RegionId.


Use Cases, Examples

  • The module is appropriate when there is need of extracting different disconnected components of a model or label them.
  • For developers: the module is a good example on how Python CLI modules can access and modify the MRML scene (unlike executable and shared library CLI modules)



Quick Tour of Features and Use

  • Surface Connectivity Parameters:
    • Connectivity mode: choose between assigning a RegionId to each connected region (AllRegions) or extract the connected region closest to a seed fiducial (ClosestToSeed).
    • Enable output fiducials: enable output of a fiducial list containing one fiducial per connected region labeled with the corresponding RegionId
  • IO:
    • Input Surface: the input surface
    • Output Surface: the labeled surface (for AllRegions mode) or the labeled portion of the surface closest to the seed (for ClosestToSeed)
User Interface


Notes from the Developer(s)

The module internally uses vtkPolyDataConnectivityFilter.





Known bugs

Follow this link to the Slicer3 bug tracker.

Usability issues

Follow this link to the Slicer3 bug tracker. Please select the usability issue category when browsing or contributing.

Source code & documentation

Links to the module's source code:

Source code:

More Information