VolViewer

Back to BanghamLab software

What? How? Where?

The VolViewer main application window.

What? VolViewer is used for viewing volume images from, for example, confocal microscopy or optical projection tomography (OPT).

Features:

• Real-time volume rendering using an optimized 3D texture slicing algorithm.
• Interactive transfer functions to independently adjust opacity and intensity for up to three data channels.
• Real-time per channel thresholding, brightness and contrast operators.
• On-the-fly gradient computation for local illumination.
• Iso-surface computation with surface smoothing.
• Section viewing in any orientation / position.
• Real-time volume clipping.
• 3D measurements, filters & segmentation.
• Key frame interpolation for movie export.
• Stereo rendering using either quad buffer or anaglyph mode.
• Scripting interface to other systems, e.g. Matlab, OMERO, etc.

How? It is open source and written in C++ using OpenGL, OpenCL and Qt.
Where? Binaries are available for the Windows, Mac OS X and Linux, see below.

Requirements: An OpenGL 2.1 / GLSL 1.20 compatible GPU with a recomended 512MB of memory.

User Documentation

Quick Guide

TUTORIALS

Video Demos

SCRIPTING

Sample Data

Antirinhium Meristem	Arabidopsis Seedling	Arabidopsis Leaf (GL2:GUS expression in red)	Arabidopsis Leaf (Ath8:::GUS expression in red)
Download	Download	Download	Download

* all data courtesy of Karen Lee [1]

Download

Although we try to keep up to date builds these sometimes lag behind the SVN trunk. So if you want the latest version / features, it is best to build the application from the trunk of the SVN. The build system is based on qmake for easy cross platform compilation.

OpenGL + Qt + OpenCL + LibTIFF + OMERO

Windows (32bit)

Windows (64bit)

Linux

MacOS X (i386/x86_64/10.5+)

OpenGL + Qt + LibTIFF

• Coming soon.

Windows Specific Notes

• You may need to install the corresponding Microsoft Visual C++ 2008 Redistributable Package which can be found here: 32bit and 64bit.
• WindowsXP users will need to change the view_gldrawbuffer = "GL_FRONT_AND_BACK" to view_gldrawbuffer = "GL_BACK" in the settings.ini file.
• The binaries are built with OMERO 4.3.4 support.

Source Code

Public SVN: https://cmpdartsvr1.cmp.uea.ac.uk/banghamlabSVN/VolViewer/

Building from source

• Building VolViewer from source

Image Gallery

Media/Press

VolViewer has appeared in the following:

Front cover: Handbook of Plant Science | Front cover: The Plant Cell | Royal Microscopical Society: Infocus Magazine | Bundled with the Bioptonic 3001 scanner: Bioptonics Viewer | The Guardian newspaper: 3D Fruit fly | Qt Ambassador program | Triffid Nurseries website

Author

• Dr Jerome Avondo Supported by the BBSRC through UEA Computing School and JIC.