Simple Neurite Tracer: open source software for reconstruction, visualization and analysis of neuronal processes.
- Longair MH Institute of Neuroinformatics, Uni/ETH Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland. longair@ini.phys.ethz.ch
- Baker DA
- Armstrong JD
- 2011-07-06
Published in:
- Bioinformatics (Oxford, England). - 2011
Animals
Computer Graphics
Humans
Image Processing, Computer-Assisted
Imaging, Three-Dimensional
Neurites
Neurons
Software
English
MOTIVATION
Advances in techniques to sparsely label neurons unlock the potential to reconstruct connectivity from 3D image stacks acquired by light microscopy. We present an application for semi-automated tracing of neurons to quickly annotate noisy datasets and construct complex neuronal topologies, which we call the Simple Neurite Tracer.
AVAILABILITY
Simple Neurite Tracer is open source software, licensed under the GNU General Public Licence (GPL) and based on the public domain image processing software ImageJ. The software and further documentation are available via http://fiji.sc/Simple_Neurite_Tracer as part of the package Fiji, and can be used on Windows, Mac OS and Linux. Documentation and introductory screencasts are available at the same URL.
CONTACT
longair@ini.phys.ethz.ch; longair@ini.phys.ethz.ch.
Advances in techniques to sparsely label neurons unlock the potential to reconstruct connectivity from 3D image stacks acquired by light microscopy. We present an application for semi-automated tracing of neurons to quickly annotate noisy datasets and construct complex neuronal topologies, which we call the Simple Neurite Tracer.
AVAILABILITY
Simple Neurite Tracer is open source software, licensed under the GNU General Public Licence (GPL) and based on the public domain image processing software ImageJ. The software and further documentation are available via http://fiji.sc/Simple_Neurite_Tracer as part of the package Fiji, and can be used on Windows, Mac OS and Linux. Documentation and introductory screencasts are available at the same URL.
CONTACT
longair@ini.phys.ethz.ch; longair@ini.phys.ethz.ch.
- Language
-
- English
- Open access status
- green
- Identifiers
-
- DOI 10.1093/bioinformatics/btr390
- PMID 21727141
- Persistent URL
- https://sonar.ch/global/documents/153388
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