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UCSF Chimera—a visualization system for exploratory research and analysis (2004)
| Venue: | J. Comput. Chem |
| Citations: | 491 - 6 self |
BibTeX
@ARTICLE{Pettersen04ucsfchimera—a,
author = {Eric F. Pettersen and Thomas D. Goddard and Conrad C. Huang and Gregory S. Couch and Daniel M. Greenblatt and Elaine C. Meng and Thomas E. Ferrin},
title = {UCSF Chimera—a visualization system for exploratory research and analysis},
journal = {J. Comput. Chem},
year = {2004},
pages = {1605--1612}
}
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Abstract
Abstract: The design, implementation, and capabilities of an extensible visualization system, UCSF Chimera, are discussed. Chimera is segmented into a core that provides basic services and visualization, and extensions that provide most higher level functionality. This architecture ensures that the extension mechanism satisfies the demands of outside developers who wish to incorporate new features. Two unusual extensions are presented: Multiscale, which adds the ability to visualize large-scale molecular assemblies such as viral coats, and Collaboratory, which allows researchers to share a Chimera session interactively despite being at separate locales. Other extensions include Multalign Viewer, for showing multiple sequence alignments and associated structures; ViewDock, for screening docked ligand orientations; Movie, for replaying molecular dynamics trajectories; and Volume Viewer, for display and analysis of volumetric data. A discussion of the usage of Chimera in real-world situations is given, along with anticipated future directions. Chimera includes full user documentation, is free to academic and nonprofit users, and is available for Microsoft Windows,
Keyphrases
ucsf chimera exploratory research visualization system extensible visualization system chimera session separate locale level functionality docked ligand orientation associated structure microsoft window anticipated future direction volume viewer full user documentation basic service volumetric data molecular dynamic trajectory unusual extension viral coat new feature outside developer nonprofit user large-scale molecular assembly multiple sequence alignment extension mechanism real-world situation multalign viewer
