https://github.com/stephanmg/vrl-swc-density-vis

Density visualization plugin for neuronal morphologies
https://github.com/stephanmg/vrl-swc-density-vis

density-visualization java morphologies neuronal swc vrl-plugin vrl-studio

Last synced: 3 months ago
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Density visualization plugin for neuronal morphologies

• Host: GitHub
• URL: https://github.com/stephanmg/vrl-swc-density-vis
• Owner: stephanmg
• License: artistic-2.0
• Created: 2014-11-05T16:12:23.000Z (over 10 years ago)
• Default Branch: master
• Last Pushed: 2021-07-29T13:47:01.000Z (almost 4 years ago)
• Last Synced: 2023-08-03T18:54:02.007Z (almost 2 years ago)
• Topics: density-visualization, java, morphologies, neuronal, swc, vrl-plugin, vrl-studio
• Language: Java
• Homepage: http://www.neurobox.eu
• Size: 40.1 MB
• Stars: 1
• Watchers: 1
• Forks: 2
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE
  • Citation: CITATION.cff

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README

        
VRL-SWC-Density-Vis

===================

A [VRL Studio](https://github.com/VRL-Studio/VRL-Studio) plugin for the density visualization and subsequent analysis of stacks of neuronal morphologies specified in the common SWC file format (cf. [*neuromorpho database*](http://neuromorpho.org)) compatible with e. g. Neurolucida, NEURON or GENESIS. By extending the existing [VRL-Density-Vis](https://github.com/NeuroBox3D/VRL-Density-Vis) plugin for the matter in hand, the [VRL-SWC-Density-Vis](https://github.com/stephanmg/VRL-SWC-Density-Vis) plugin integrates flawless within the novel [NeuroBox](http://neurobox.eu/) *3D* toolbox for detailed simulations and analysis in *Computational Neuroscience* (compare the organization [NeuroBox3D](https://github.com/NeuroBox3D)). For a specification of the SWC file format cf. [NeuroLand](http://www.neuronland.org/NLMorphologyConverter/MorphologyFormats/SWC/Spec.html).

# CI and license

[![Codacy Badge](https://api.codacy.com/project/badge/Grade/1363909ef6d445e7aa758f3b56fa6da5)](https://app.codacy.com/manual/stephan_5/VRL-SWC-Density-Vis?utm_source=github.com&utm_medium=referral&utm_content=stephanmg/VRL-SWC-Density-Vis&utm_campaign=Badge_Grade_Dashboard)

[![Build status (Linux/OSX)](https://api.travis-ci.org/stephanmg/VRL-SWC-Density-Vis.svg?branch=new_features)](https://travis-ci.org/stephanmg/VRL-SWC-Density-Vis)

[![Build status (Windows)](https://ci.appveyor.com/api/projects/status/mbp14vk1k591p5jk?svg=true)](https://ci.appveyor.com/project/stephanmg/vrl-swc-density-vis)

[![Coverage Status](https://coveralls.io/repos/stephanmg/VRL-SWC-Density-Vis/badge.png)](https://coveralls.io/r/stephanmg/VRL-SWC-Density-Vis)

[![License: Artistic-2.0](https://img.shields.io/badge/License-Artistic%202.0-0298c3.svg)](https://opensource.org/licenses/Artistic-2.0)

# Literature

You are obliged to cite the following reference (See in Bibtex format [here](https://github.com/stephanmg/VRL-SWC-Density-Vis/dvp.bib)) if you use the software to analyze and publish results: *Grein Stephan, Qi Guanxiao, Queisser Gillian (2020): Density Visualization Pipeline: A Tool for Cellular and Network Density Visualization and Analysis in Frontiers in Computational Neuroscience for From Neuronal Network to Artificial Neural Network: Structure, Function and Intelligence*