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Topological Analysis of Neuronal Morphologies.
Topological Morphology Descriptor.
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TMD: Topological Morphology Descriptor
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The TMD performs topological analysis of neuronal morphologies and extracts the persistence of trees.
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Author: Lida Kanari
Contributors: Pawel Dlotko

Authors: Lida Kanari
Contributors: Pawel Dlotko, Benoit Coste

Publication: A Topological Representation of Branching Neuronal Morphologies
DOI: https://doi.org/10.1007/s12021-017-9341-1

Cite this article as:
Kanari, L., Dłotko, P., Scolamiero, M. et al. Neuroinform (2018)
16: 3. https://doi.org/10.1007/s12021-017-9341-1
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Kanari, L., Dłotko, P., Scolamiero, M. et al. Neuroinform (2018) 16:3.
DOI: <https://doi.org/10.1007/s12021-017-9341-1>

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Sotware description
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This Python module includes:

* Toolkit to load morphologies in swc and h5 file format.
* Toolkit to extract the topological descriptors of tree morphologies.
* Basic loading of neuronal morphologies in swc and h5 file format.
* Extraction of the topological descriptors of tree morphologies.
* Visualization of neuronal trees and neurons.
* Ploting persistence diagrams, barcodes and images.

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Supported OS
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Ubuntu : 12.0, 14.04, 16.04

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Required Dependencies
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Python : 2.7
Numpy : 1.8.1
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