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Notes:
Vaa3D binary release v3.200 for Windows, Mac, and Linux (CentOS
and Ubuntu)
The new release comes with 100+ (130+ for Linux) plugins / tools
for neuroinformatics, Big Data, neuroimaging, etc. It has the
powerful built-in TeraFly engine for surfing terabytes of images
without stopping, in 3D and on ordinary computers directly. Read a
new Nature Methods paper about this technique ( http://www.nature.com/nmeth/journal/v13/... ).
Vaa3D (in Chinese '挖三维') is an Open Source, award-winning
visualization and analysis software suite created mainly by Janelia
Research Campus, HHMI and Allen Institute for Brain Science. The
software performs 3D, 4D and 5D rendering and analysis of very
large image data sets, especially those generated using various
modern microscopy methods, and associated 3D surface objects.
Vaa3D has been used in hundreds of high profile publications in
Nature, Science, Cell, Neuron, IEEE Transactions, etc. It is used
as platform software for several of the largest brain research
initiatives in the world.
How to run Vaa3D?
Windows: After downloading the zipped executable file, unzip and
double click the exe file to install and then run.
Mac: Download and unzip the file, then move it into /Applications
folder, then you can find and right-click on the 'vaa3d.app' to
launch it.
Linux: After downloading Vaa3D, first run 'tar zxvf [filename]' and
then enter the produced folder, and run './start_vaa3d.sh'.
License and references
To use this software package, you agree with the license of the
Vaa3D and that you will cite the following papers in your work.
Peng, H., Ruan, Z., Long, F., Simpson, J.H., and Myers, E.W. (2010)
"V3D enables real-time 3D visualization and quantitative analysis
of large-scale biological image data sets," Nature Biotechnology,
Vol. 28, No. 4, pp.348-353. (http://vaa3d.org)
Peng, H., Bria, A., Zhou, Z., Iannello, G., and Long, F. (2014)
"Extensible visualization and analysis for multidimensional images
using Vaa3D," Nature Protocols, Vol. 9, No. 1, pp. 193-208. (http://vaa3d.org)
Peng, H., et al. (2014) "Virtual finger boosts three-dimensional
imaging and microsurgery as well as terabyte volume image
visualization and analysis," Nature Communications, Vol. 5, No.
4342, DOI: 10.1038/ncomms5342.
Bria, A., et al. (2016) "TeraFly: real-time 3D visualization and 3D
annotation of terabytes of multidimensional volumetric images,"
Nature Methods, Vol. 13, pp. 192-194, DOI: 10.1038/nmeth.3767.
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