OpenScience / Software



Wise2

Posted on March 1, 2001 by Dan Gezelter

Wise2 is package that is focused on comparing DNA sequences at the level of its conceptual translation, regardless of sequencing error and introns. Find Wise2 at: http://www.sanger.ac.uk/Software/Wise2/

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XBS

Posted on March 1, 2001 by Dan Gezelter

XBS is a simple but very useful program for plotting ball-and-sticks models of molecules or crystals under the X Window system. Find XBS at: http://www.ccl.net/chemistry/resources/software/X-WINDOW/xbs/index.shtml

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Posted in Molecule Viewers and Editors | Leave a comment

ORTEP

Posted on February 28, 2001 by Dan Gezelter

Oak Ridge Thermal Ellipsoid Plot Program for Crystal Structure Illustrations Find ORTEP at: http://www.ornl.gov/ortep/ortep.html

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PAML

Posted on February 28, 2001 by Dan Gezelter

Phylogenetic Analysis by Maximum Likelihood Find PAML at: http://abacus.gene.ucl.ac.uk/software/paml.html

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PHYLIP

Posted on February 28, 2001 by Dan Gezelter

PHYLIP Phylogeny Inference Package computer programs for inferring phylogenies Find PHYLIP at: http://evolution.genetics.washington.edu/phylip.html

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PomBase

Posted on February 28, 2001 by Dan Gezelter

An AceDB database for the fission yeast Schizosaccharomyces pombe. Find PomBase at: http://www.genedb.org/genedb/pombe/blast.jsp

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PROCHECK

Posted on February 28, 2001 by Dan Gezelter

Checks the stereochemical quality of a protein structure, producing a number of PostScript plots analysing its overall and residue-by-residue geometry. Find PROCHECK at: https://www.ebi.ac.uk/thornton-srv/software/PROCHECK/

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PyMOL

Posted on February 28, 2001 by Dan Gezelter

PyMOL is a molecular graphics system with an embedded Python interpreter designed for real-time visualization and rapid generation of high-quality molecular graphics images and animations. Find PyMOL at: http://pymol.sourceforge.net/

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QMOL

Posted on February 28, 2001 by Dan Gezelter

Qmol is a program for viewing molecular structures and animating molecular trajectories. Find QMOL at: http://www.ccl.net/cca/software/MS-WIN95-NT/qmol/index.shtml

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Raster3D

Posted on February 28, 2001 by Dan Gezelter

Raster3D is a set of tools for generating high quality raster images of proteins or other molecules. Find Raster3D at: http://www.bmsc.washington.edu/raster3d/raster3d.html

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