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| :'''''Version:''''' 14.11+ '''''Contact:''''' spider@wadsworth.org '''''OS support:''''' Most platforms '''''Image format support:''''' Most formats '''''Cost:''''' Free (GNU General Public License) | :'''''Version:''''' 14.11+ '''''Contact:''''' spider@wadsworth.org '''''OS support:''''' Most platforms '''''Image format support:''''' Most formats '''''Cost:''''' Free (GNU General Public License) | ||
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| == Specific packages: == | == Specific packages: == | ||
Revision as of 22:10, 7 September 2006
There are a large number of software tools or software applications that have been specifically developed for the field known sometimes referred to as molecular microscopy or cryo-electron microscopy or cryoEM. Several special issues of the Journal of Structural Biology (see references below) have been specifically devoted to descriptions of these applications and several web sites provide partial lists of the software packages and where to obtain them. This article is being created to provide a starting point for a more complete list and up-to-date distribution information of all of the software of interest to the cryoEM community.
The software tools described here have been loosely and somewhat arbitrarily organized into several categories as follows:
General packages: Packages that offer a comprehensive set of tools t o permit the analysis of data in several classes of structural problems.
Specific packages: Packages that offer a comprehensive set of tools to permit the analysis of data in a single class of structural problem. For example packages specifically focused on objects with helical, icosahedral, crystalline symmetry, etc.
Application tools: Packages that offer a tool or a set of tools to permit the analysis of data in one or more class of structural problems. These have generally been developed to manage one specific step in the structural analysis, for example CTF correction, particle picking etc.
Visualization tools: Packages that facilitate the analysis or presentation of the results.
General packages:
- EMAN is a set of image/volume processing tools to perform single particle reconstructions. This is a technique for determining the 3 dimensional structure of a molecule from thousands to hundreds of thousands of noisy images of individual molecules. There are other techniques for performing this task, such as x-ray diffraction, NMR spectroscopy, and 2d/helical electron crystallography.
- Version: 1.7 Contact: sludtke@bcm.tmc.edu OS support: Most platforms Image format support: Most formats Cost: Free
- SPIDER (System for Processing Image Data from Electron microscopy and Related fields) is an image processing system for electron microscopy.
- Version: 14.11+ Contact: spider@wadsworth.org OS support: Most platforms Image format support: Most formats Cost: Free (GNU General Public License)
Publications:
Specific packages:
- Content to be added shortly
Application tools:
- Content to be added shortly
Visualization tools:
- Content to be added shortly
See also:
References:
- Advances in Computational Image Processing for Microscopy, JSB volume 116 1996
- Frank, Joachim (2006). Three-Dimensional Electron Microscopy of Macromolecular Assemblies: Visualization of Biological Molecules in Their Native State, 2nd edition, Oxford University Press. ISBN 0195182189.
External links:
- EM for Dummies. EM for Dummies. Retrieved on June 09, 2006.