Amira Skeletonization Option

Reconstruction and analysis of networks

This free-of-charge option supports reconstruction and analysis of vascular, dendritic, and fracture networks. It combines specific micro-detailed image mosaic management with advanced automatic and semi-automatic tools for reconstruction of a 3D vessel network from, for example, confocal microscopy or electron microscopy image acquisition. The Skeletonization Option delivers a unique set of features for the researcher who studies and analyzes neurons or micro-vascular networks.

Note: Several features of this option are also available in the Filament Editor (see Microscopy Option) with dedicated user interfaces.


Windows 32-bit, Windows 64-bit, Mac OS, Linux

Automatically Extract Filament Networks

The Skeletonization Option provides automatic and semi-automatic tools for
quantitative study of filament networks.

  • Automatic skeletonization tools
  • Distance mapping
  • Thinning
  • Smoothing
  • Support for bricked data (mosaic)
  • Radius histogram