Difference between revisions of "VMD"
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| + | This varies widely. About half the respondents have data sets smaller than a few GB. Two had data sets of 40 and 50 GB. Otherwise they had 1,000 or 30,000 atoms. | ||
====Advantages==== | ====Advantages==== | ||
Revision as of 12:49, 21 November 2014
[VMD] "is designed for modeling, visualization, and analysis of biological systems such as proteins, nucleic acids, lipid bilayer assemblies, etc. It may be used to view more general molecules, as VMD can read standard Protein Data Bank (PDB) files and display the contained structure. VMD provides a wide variety of methods for rendering and coloring a molecule: simple points and lines, CPK spheres and cylinders, licorice bonds, backbone tubes and ribbons, cartoon drawings, and others. VMD can be used to animate and analyze the trajectory of a molecular dynamics (MD) simulation. In particular, VMD can act as a graphical front end for an external MD program by displaying and animating a molecule undergoing simulation on a remote computer."
Contents
Type of Data
Unsurprisingly, most respondents use this software for molecular/atomic/protein visualisation.
Size of Data Set
This varies widely. About half the respondents have data sets smaller than a few GB. Two had data sets of 40 and 50 GB. Otherwise they had 1,000 or 30,000 atoms.
