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Neuromantic – from Semi-Manual to Semi-Automatic Reconstruction of Neuron Morphology
The ability to create accurate geometric models of neuronal morphology is important for understanding the role of shape in information processing. Despite a significant amount of research on automating neuron reconstructions from image stacks obtained via microscopy, in practice most data are still...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Research Foundation
2012
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3305991/ https://www.ncbi.nlm.nih.gov/pubmed/22438842 http://dx.doi.org/10.3389/fninf.2012.00004 |
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author | Myatt, Darren R. Hadlington, Tye Ascoli, Giorgio A. Nasuto, Slawomir J. |
author_facet | Myatt, Darren R. Hadlington, Tye Ascoli, Giorgio A. Nasuto, Slawomir J. |
author_sort | Myatt, Darren R. |
collection | PubMed |
description | The ability to create accurate geometric models of neuronal morphology is important for understanding the role of shape in information processing. Despite a significant amount of research on automating neuron reconstructions from image stacks obtained via microscopy, in practice most data are still collected manually. This paper describes Neuromantic, an open source system for three dimensional digital tracing of neurites. Neuromantic reconstructions are comparable in quality to those of existing commercial and freeware systems while balancing speed and accuracy of manual reconstruction. The combination of semi-automatic tracing, intuitive editing, and ability of visualizing large image stacks on standard computing platforms provides a versatile tool that can help address the reconstructions availability bottleneck. Practical considerations for reducing the computational time and space requirements of the extended algorithm are also discussed. |
format | Online Article Text |
id | pubmed-3305991 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2012 |
publisher | Frontiers Research Foundation |
record_format | MEDLINE/PubMed |
spelling | pubmed-33059912012-03-21 Neuromantic – from Semi-Manual to Semi-Automatic Reconstruction of Neuron Morphology Myatt, Darren R. Hadlington, Tye Ascoli, Giorgio A. Nasuto, Slawomir J. Front Neuroinform Neuroinformatics The ability to create accurate geometric models of neuronal morphology is important for understanding the role of shape in information processing. Despite a significant amount of research on automating neuron reconstructions from image stacks obtained via microscopy, in practice most data are still collected manually. This paper describes Neuromantic, an open source system for three dimensional digital tracing of neurites. Neuromantic reconstructions are comparable in quality to those of existing commercial and freeware systems while balancing speed and accuracy of manual reconstruction. The combination of semi-automatic tracing, intuitive editing, and ability of visualizing large image stacks on standard computing platforms provides a versatile tool that can help address the reconstructions availability bottleneck. Practical considerations for reducing the computational time and space requirements of the extended algorithm are also discussed. Frontiers Research Foundation 2012-03-16 /pmc/articles/PMC3305991/ /pubmed/22438842 http://dx.doi.org/10.3389/fninf.2012.00004 Text en Copyright © 2012 Myatt, Hadlington, Ascoli and Nasuto. http://www.frontiersin.org/licenseagreement This is an open-access article distributed under the terms of the Creative Commons Attribution Non Commercial License, which permits non-commercial use, distribution, and reproduction in other forums, provided the original authors and source are credited. |
spellingShingle | Neuroinformatics Myatt, Darren R. Hadlington, Tye Ascoli, Giorgio A. Nasuto, Slawomir J. Neuromantic – from Semi-Manual to Semi-Automatic Reconstruction of Neuron Morphology |
title | Neuromantic – from Semi-Manual to Semi-Automatic Reconstruction of Neuron Morphology |
title_full | Neuromantic – from Semi-Manual to Semi-Automatic Reconstruction of Neuron Morphology |
title_fullStr | Neuromantic – from Semi-Manual to Semi-Automatic Reconstruction of Neuron Morphology |
title_full_unstemmed | Neuromantic – from Semi-Manual to Semi-Automatic Reconstruction of Neuron Morphology |
title_short | Neuromantic – from Semi-Manual to Semi-Automatic Reconstruction of Neuron Morphology |
title_sort | neuromantic – from semi-manual to semi-automatic reconstruction of neuron morphology |
topic | Neuroinformatics |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3305991/ https://www.ncbi.nlm.nih.gov/pubmed/22438842 http://dx.doi.org/10.3389/fninf.2012.00004 |
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