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BlueBrain / NeuroM

Neuronal Morphology Analysis Tool
https://neurom.readthedocs.io/
BSD 3-Clause "New" or "Revised" License
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New feature: tortuosity #375

Closed lidakanari closed 8 years ago

lidakanari commented 8 years ago

It would be useful for validations to add the section_tortuosity feature at the "get" level for the next release.

Definition of tortuosity can be found here (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3928584/):

"Also, the distance metric (DM) tortuosity (a dimensionless number) provides a ratio between the actual path length (correction: this should be section length) of a meandering curve (i.e. along segments) and the linear distance between endpoints (radial distance)"

Neuroanatomical Tract-Tracing: Molecules, Neurons, and Systems, by Laszlo Zaborszky, Floris G. Wouterlood, José Luis Lanciego

The dendritic tortuosity gives a ratio between the actual length of a dendritic segment (our section) and the distance between its endpoints

juanchopanza commented 8 years ago

If this is simply the section path length divided by the end-to-end distance, then I can add if to fst.get. Will that suffice, or do we also need it in ezy.get?

lidakanari commented 8 years ago

Yes, it is the section length of a section divided by the radial distance of the between its endpoints. I think it will be sufficient to be added to fst unless the ezy.get will not be deprecated any time soon.