Showing 11 open source projects for "mac pymol"

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  • 1
    Jmol

    Jmol

    An interactive viewer for three-dimensional chemical structures.

    Over 1,000,000 page views per month. Jmol/JSmol is a molecular viewer for 3D chemical structures that runs in four independent modes: an HTML5-only web application utilizing jQuery, a Java applet, a stand-alone Java program (Jmol.jar), and a "headless" server-side component (JmolData.jar). Jmol can read many file types, including PDB, CIF, SDF, MOL, PyMOL PSE files, and Spartan files, as well as output from Gaussian, GAMESS, MOPAC, VASP, CRYSTAL, CASTEP, QuantumEspresso, VMD, and many other...
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    Downloads: 1,351 This Week
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  • 2
    SBEVSL is a collaborative project between Dowling and RIT on the development of a Structural Biology Extensible Visualization Scripting Language, so that users can move freely among various molecular graphics tools, such as rasmol, pymol, raster3d, etc.
    Downloads: 0 This Week
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  • 3
    PyMOL Molecular Graphics System

    PyMOL Molecular Graphics System

    PyMOL is an OpenGL based molecular visualization system

    The Open-Source PyMOL repository has been moved to github: https://github.com/schrodinger/pymol-open-source We still use the pymol-users mailing list here on sourceforge. Please subscribe for community support: https://pymol.org/maillist (Note: SourceForge email newsletter and special offers are optional and can be unchecked) The PyMOL community wiki has its own home: https://pymolwiki.org/
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    Downloads: 124 This Week
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  • 4

    DEPRECATED - KVFinder

    Cavity Detection PyMOL plugin

    The KVFinder software, originally published in 2014, is deprecated. We published more recent software: parKVFinder and pyKVFinder. [parKVFinder] A Linux/macOS version is available in this GitHub repository, https://github.com/LBC-LNBio/parKVFinder, while a Windows version is in this GitHub repository, https://github.com/LBC-LNBio/parKVFinder-win. Please read and cite the original paper ParKVFinder: A thread-level parallel approach in biomolecular cavity detection...
    Downloads: 0 This Week
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  • 5

    xPyder PyMOL Plugin

    Analyze and visualize coupled residues and their networks in proteins

    xPyder is a PyMOL plugin to analyze and visualize on the 3D structure dynamical cross-correlation matrices (DCCM), linear mutual information (LMI), communication propensities (CP), intra- and inter-molecular interactions (e.g. PSN), and more, to produce highly customizable publication-quality images. xPyder identifies networks (using concepts from graph theory, such as hubs and shortest path searching), compares matrices and focuses the analysis on relevant information by filtering the data...
    Downloads: 3 This Week
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  • 6

    PyInteraph

    analysis of interaction networks in structural ensembles of proteins

    ... be thoroughly analyzed using included network analysis tools, which are able to point out the most important features of the network for the discovery of paths of structural communication in proteins. The tool works best together with the xPyder PyMOL plugin ( http://xpyder.sourceforge.net ), which allows for further analysis and easily understandable representation of the calculated networks and graphs.
    Downloads: 1 This Week
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  • 7

    Bugs

    SW for HTP analysis of 3D trajectories of microorganisms

    ... for distortions arising from media shift, shrinkage/expansion; analytically-derived instantaneous velocity, curvature and twist/torsion parameters calculated at regularly-sampled spatial intervals along the Fourier-smoothed trajectory; facilities for direct visualization and analysis of the raw and Fourier-fit trajectories, and their derived parameters, via interface with molecular graphics software (eg, PyMol.)
    Downloads: 0 This Week
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  • 8
    PyMOL Plugins aims to provide many plugins for the PyMOL software. You can find further informations about PyMOL on this website: http://www.pymol.org/
    Downloads: 0 This Week
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  • 9

    PreDyJE

    PreDyJE is a python tool to calculate dehydrons in a protein.

    PreDyJE is a python tool to calculate dehydrons in a protein PDB. Dehydrons are solvent-exposed hydrogen bonds. It runs in command-line, but a Pymol script has been developed as well. Dehydrons can be visualized in Pymol with another plugin. Structure of the program is available in the documentation.
    Downloads: 0 This Week
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    Cyber Risk Assessment and Management Platform

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  • 10
    MIPGen

    MIPGen

    Simple Molecular Interaction Potential Generator in Python

    Molecular Interaction Potential Generator MIPGEN is a python program that will calculate Molecular Interaction Potential grids over a given molecule, that could be either a protein or a small organic compound (drug). The output will be a series of grids with DX format (*.dx) that the user will be able to visualize using any Molecular visualization program like VMD, PyMol, Chimera... For more information on dependencies and usage, please read the Documentation. Users are welcome to post any...
    Downloads: 0 This Week
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  • 11
    bni-tools
    --UPDATE-- New Version is now integrated in the official PyMOL plugin repository! --UPDATE-- The BNI (Beyond Normal Interaction)- Tools is a plug in for the PyMOL molecular visualization system which adds additional functionalities and presets to the PyMOL GUI and also adds useful extended commands.
    Downloads: 1 This Week
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