Hanchuan peng’s Shared software

  1. Vaa3D: 3D/4D/5D image/surface renderer, 3D image analysis & meta-data management, and more (highly downloaded)

  2. Vaa3D Matlab IO toolbox: some Matlab routines to read/write V3D data files for further analysis

  3. CellExplorer: 3D C. elegans atlas building & application tools

  4. VANO: 3D image annotator

  5. BDB-: deformable curve in n-dim

  6. mRMR: feature selector (highly accessed)

  7. Mutual information Matlab toolbox: (highly downloaded)

Vaa3D (The Swiss army knife for 3D/4D/5D image visualization & analysis) (Current version 2.7)

A handy tool for visualizing and analyzing large 3D image stacks and various surface data. Not only a fast 3D renderer, but also a container of powerful 3D image analysis (cell segmentation, neuron tracing, brain registration, annotation, etc) and data management modules. Customary plugins can be developed by users. With the versatile 3D viz-analysis features and quantitative statistical measurements, Vaa3D provides an excellent desktop solution for various bioimage informatics applications, and also a platform to develop new 3D image analysis algorithms which can be deployed for high-throughput processing. Vaa3D streamlines the viz-analysis workflow, - the whole is greater than the sum of its parts!

Vaa3D Matlab IO toolbox [ Download it at Vaa3D website ]

Read/write basic Vaa3D data files (image files .RAW, .TIFF, marker file .marker, point cloud file .apo, neuron file .swc).