Plant Image Analysis Plant Image Analysis

Vaa3D

Hanchuan Peng lab
Download Developer
Scientific article
V3D enables real-time 3D visualization and quantitative analysis of large-scale biological image data sets.
H. Peng, Z. Ruan, F. Long, JH. Simpson, EW. Myers,
2010 , Nat. Biotechnol. , 28(4), 348
View at publisher


Automatic reconstruction of 3D neuron structures using a graph-augmented deformable model.
H. Peng, Z. Ruan, D. Atasoy, S. Sternson,
2010 , Bioinformatics , 26(12), 0
View at publisher | Download PDF


Extensible visualization and analysis for multidimensional images using Vaa3D.
H. Peng, A. Bria, Z. Zhou, G. Iannello, F. Long,
2014 , Nat Protoc , 9(1), 193
View at publisher


Description

Vaa3D is a cross-platform (Mac, Linux, and Windows) tool for visualizing large-scale (gigabytes, and 64-bit data) 3D image stacks and various surface data. It is also a container of powerful modules for 3D image analysis (cell segmentation, neuron tracing, brain registration, annotation, quantitative measurement and statistics, etc) and data management. This makes Vaa3D suitable for various bioimage informatics applications, and a nice platform to develop new 3D image analysis algorithms for high-throughput processing. In short, Vaa3D streamlines the workflow of visualization-assisted analysis.


Source: Vaa3D webpage

Gallery
Share your experience
blog comments powered by Disqus
Submit your own rating
Overview
Operating system
mac, windows, linux,

Licence
freeware, open-source,

Measured variables
3D-reconstruction, surface,

Automation level
automated,

Plant requirements
any,

Image requirements
any,

Export formats
-,

Other information
-

Similar software