Visual Molecular Dynamics (VMD)
VMD is a molecular visualization program for displaying,
animating, and analyzing large biomolecular systems using 3-D graphics
and built-in scripting.
It can be used to view more general molecules, as VMD reads
standard Protein Data Bank (PDB) files and display the contained
structure. VMD provides a wide variety of methods for
rendering and coloring molecule. VMD can be used to animate
and analyze the trajectory of molecular dynamics (MD) simulations, and
can interactively manipulate molecules being simulated on remote
computers (Interactive MD).
VMD 1.9.1
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Price
Free to download
Size
27.3MB
License
Freeware
Developer
University of Illinois at Urbana-Champaign
Website
ks.uiuc.edu/Research/vmd
System Requirements
GL or OpenGL based 3-D rendering libraries
Other programs required to use optional features
Support
Sites:
Documentation
Selected
Reviews:
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Features include:
- Support for GPU accelerated computation
- No limits on the number of molecules, atoms, residues or
number of trajectory frames, except available memory
- Fendering mode which supports scene capture with Adobe
Acrobat3D, allowing researchers to create PDF documents containing 3-D
scenes from VMD
- Many molecular rendering and coloring methods including
support for high-quality molecular scene rendering using Tachyon,
NVIDIA Gelato, and PIXAR RenderMan
- Stereo display capability
- Extensive
atom selection syntax for choosing subsets of atoms for display
(includes boolean operators, regular expressions, and more)
- Support
for over 60 molecular file formats and data types through an extensive
library of built-in file reader/writer plugins and translators VMD
includes a multiple sequence alignment plugin, a unified bioinformatics
analysis environment that allows one to organize, display, and analyze
both sequence and structure data for proteins and nucleic acids.
- Ability
to export displayed graphics to files which may be processed by a
number of popular ray tracing and image rendering packages, including
POV-Ray, Rayshade, Raster3D, and Tachyon.
- User-extensible graphical and text-based user interfaces,
built-on standard Tcl/Tk and Python
scripting languages
- Extensions to the Tcl language which enable researchers to
write their own routines for molecular analysis
- Modular,
extensible source code using an object-oriented design in C++, with a
programmers guide describing the program architecture and source code
- Integration
with the program NAMD, a fast, parallel, and scalable molecular
dynamics program
- VMD tutorials developed locally, and by the research
community at large
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Last Updated Saturday, April 13 2013 @ 04:12 PM EDT
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