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Deconvolution in Optical Microscopy

Deconvolution is emerging as a powerful tool for high-resolution three-dimensional analysis of complex biological specimens. Assisting in the development of existing and new deconvolution techniques is a host of universities, research institutions, and commercial organizations. This section contains links to web resources on deconvolution analysis, including software packages, hardware (microscopes and accessories), and laboratories involved with the technology.

3-D Doctor - 3D-Doctor, written and distributed by Able Software Corporation, is an advanced 3D image visualization, rendering and measurement software package designed for microscopy and related imaging applications. The software creates 3D surface model and volume rendering from two-dimensional cross-section images using PC platforms.

Applied Precision - Designers of the DeltaVision Restoration Microscopy System, Applied Precision offers a complete hardware and software package to assist the microscopist in obtaining high-quality digital images from fluorescent specimens. The package consists of deconvolution software, microscope light path and stage control hardware, and custom optical filters.

AutoQuant Imaging - AutoQuant offers three powerful software pages designed for advanced image processing using deconvolution and three-dimensional optical microscopy techniques. AutoDeblur is a deconvolution software package developed for the Windows platform that removes haze, blur, noise, and other artifacts from two- and three-dimensional micrographs. Among AutoQuant's three-dimensional software programs is the powerful AutoVisualize-3D, which is a rendering and visualization program suited for inspecting biomedical imagery, such as optically sectioned widefield micrographs. A second program, OcuView-3D is designed to compensate for motion (shift and rotation) of specimens that are alive and moving.

Intelligent Imaging Innovations - The company, more commonly known as 3i, designs and produces high-end, user-friendly digital imaging systems and software that integrate state-of-the-art automated fluorescence microscopes with powerful multi-dimensional data acquisition and analysis.

W. M. Keck Center for Cellular Imaging - Scientists at the Keck Center have built an educational website dealing with a variety of aspects in optical microscopy. Included are tutorials on deconvolution, confocal microscopy, and multiphoton microscopy. The tutorials are accompanied by an image library and lists of selected references.

Quantum Image Lab - Specializing in deconvolution software, this company markets a software package entitled Quantum ImageLab that includes tools for fast Fourier transform, deconvolution, point spread function retrieval, analyzing image stacks, and scripting tools for microscopy and video restoration.

Scanalytics Deconvolution - Now part of BD Biosciences, Scanalytics offers several software packages for deconvolution microscopy. Packages for both the Windows and Macintosh platforms supply algorithms for deconvolution, volume rendering, and deblurring.

Scientific Volume Imaging - Specializing in deconvolution and volume rendering software, this company offers several software packages available to the microscopist. The Huygens Professional is a deconvolution application that enables restoration of widefield and confocal 2D, 3D and 4D (time series) images using a UNIX platform that operates on Silicon Graphics computers or LINUX on personal computers. The Huygens Essential is based on the same compute engine, but has a wizard driven user interface that makes deconvolution user-friendly. The software is available for a number of platforms, including Windows, LINUX, IRIX, IBM AIX, and Macintosh OS X.

Scientific Volume Imaging: FreeSFP - Based on a physically realistic light propagation model, the SFP renderer allows you to view your raw and deconvolved multi-channel 3D datasets in a very intuitive manner. This freeware is downloadable from SVI's website.

Scientific Volume Imaging: SVI-Wiki - The SVI-wiki is a rapidly expanding public knowledge resource on 3D microscopy and deconvolution. Designed around the wiki wiki web principle, it is open to contributions from every visitor. In addition the website serves as a support medium for SVI customers and relations to discuss different aspects of SVI's Huygens deconvolution software.

John W. Sedat Laboratory - Professor Sedat, along with Dr. David A. Agard, first demonstrated deconvolution microscopy in the 1980s. Recently, they have developed several new methods of three-dimensional microscopy, including computerized wide-field deconvolution microscopy for multiwavelength fluorescence imaging of living cells, and electron tomography for three-dimensional imaging in the elctron microscope.

VayTek - Specializing in scientific digital imaging and presentation applications, VayTek manufactures and distributes deconvolution, three-dimension volume rendering, measurement, and presentation software. Also offered are packages that supply digital control for microscope peripherals.

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