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Biochemical and Organic Simulation System

Molecular modelling

Biochemical and Organic Simulation System Description
Biochemical and Organic Simulation System (BOSS) is a general-purpose molecular modeling program that performs molecular mechanics calculations, Metropolis Monte Carlo statistical mechanics simulations, and semiempirical Austin Model 1 (AM1), PM3, and PDDG/PM3 quantum mechanics calculations. The molecular mechanics calculations cover energy minimizations, normal mode analysis and conformational searching with the Optimized Potentials for Liquid Simulations (OPLS) force fields. BOSS is developed by Prof. William L. Jorgensen at Yale University, and distributed commercially by Cemcomco, LLC and Schrödinger, Inc.
A list below shows Biochemical and Organic Simulation System alternatives which were either selected by us or voted for by users. You can filter this list by tags and platforms

Latest version of Biochemical and Organic Simulation System is 4.9 and it was released on {{Start date and age|2013|01}}.

Biochemical and Organic Simulation System Alternatives

  • SWISSMODEL

    SWISS-MODEL is a structural bioinformatics web-server dedicated to homology modeling of protein 3D structures. Homology modeling is currently the most accurate method to generate reliable...

    Tags: Bioinformatics, Molecular Modelling Software
  • Molekel by Swiss National Supercomputing Centre

    Molekel is a free software multiplatform molecular visualization program. It was originally developed at the University of Geneva by Peter F. Flükiger in the 1990s for Silicon Graphics Computers. In...

    Latest version of Molekel is 5.4 and it was released on {{Start date and age|2009|08}}.

    Tags: Chemistry Software For Linux, Free Chemistry Software, Molecular Modelling Software, Science Software That Uses Qt
  • MesoBioNano Studio by MBN Research Center

    MBN Studio (MesoBioNano Studio) is a general-purpose computer program for molecular modeling and design, as well as for visualization and analysis of atomistic simulations data. It is written in the...

    Latest version of MesoBioNano Studio is 3.0 and it was released on 2017-03-31.

    Tags: Molecular Modelling Software, Molecular Modelling, Physics Software
  • LigandScout by Inte:Ligand GmbH

    LigandScout is computer software that allows creating three-dimensional (3D) pharmacophore models from structural data of macromolecule-ligand complexes, or from training and test sets of organic...

    Latest version of LigandScout is 4.0 and it was released on {{Start date and age|2016}}.

    Tags: Medicinal Chemistry, Molecular Modelling Software
  • Yet Another Scientific Artificial Reality Application by YASARA Biosciences,WHAT IF Foundation,Spronk NMR Consultancy

    Yet Another Scientific Artificial Reality Application (YASARA) is a computer program for molecular visualising, modelling, and dynamics. It has many scientific uses, as expressed by the large number...

    Latest version of Yet Another Scientific Artificial Reality Application is 16.7.22 and it was released on 2016-07-22.

    Tags: Molecular Modelling Software, Molecular Dynamics Software
  • MacroModel by Schrödinger, LLC

    MacroModel is a computer program for molecular modelling of organic compounds and biopolymers. It features various chemistry force fields, plus energy minimizing algorithms, to predict geometry and...

    Latest version of MacroModel is 11.3 and it was released on {{Start date and age|2016|03}}.

    Tags: Molecular Modelling Software, Molecular Dynamics Software
  • MMTK

    The Molecular Modelling Toolkit (MMTK) is an open-source software package written in Python, which performs common tasks in molecular modelling. , MMTK consists of about 18,000 lines of Python...

    Latest version of MMTK is 2.7.4 and it was released on 2011-04-28.

    Tags: Molecular Modelling Software, Molecular Dynamics Software, Python Software
  • MesoBioNano Explorer by MBN Research Center

    MBN Explorer (MesoBioNano Explorer) is a software package for molecular dynamics simulations, structure optimization and kinetic Monte Carlo simulations. It is designed for computational analysis of...

    Latest version of MesoBioNano Explorer is 3.0 and it was released on 2017-03-31.

    Tags: Molecular Dynamics Software, Molecular Modelling Software, Physics Software
  • VMD by University of Illinois at Urbana-Champaign

    Visual molecular dynamics (VMD) is a molecular modelling and visualization computer program. VMD is developed as mainly a tool to view and analyze the results of molecular dynamics simulations. It...

    Latest version of VMD is 1.9.3 and it was released on {{Start date and age|2016|11}}.

    Tags: Molecular Modelling Software
  • PyMOL by Schrödinger, Inc.

    PyMOL is computer software, a molecular visualization system created by Warren Lyford DeLano. It is user-sponsored, open-source software, released under the Python License. It was commercialized...

    Latest version of PyMOL is 1.8.6.2 and it was released on 2017-06-26.

    Tags: Articles Containing Video Clips, Chemistry Software For Linux, Free Chemistry Software, Molecular Modelling Software, Software That Uses Tk
  • CoNTub

    CoNTub is a software project written in Java which runs on Windows, Mac OS X, Linux and Unix Operating systems through any Java-enabled web browser. It is the first implementation of an algorithm...

    Latest version of CoNTub is 2.0 and it was released on {{release date and age |2011|09}}.

    Tags: Molecular Modelling Software, Freeware, Science Software, Java Platform Software
  • Ascalaph Designer by Agile Molecule

    Ascalaph Designer is a computer program for general purpose molecular modelling for molecular design and simulations. It provides a graphical environment for the common programs of quantum and...

    Latest version of Ascalaph Designer is 1.8.94 and it was released on 2015-12-03.

    Tags: Molecular Modelling Software, Molecular Dynamics Software, Free Science Software
  • Foldinghome by Pande Laboratory, Sony,Nvidia,ATI, Cauldron Development

    Folding@home (FAH or F@h) is a distributed computing project for disease research that simulates protein folding, computational drug design, and other types of molecular dynamics. The project uses...

    Latest version of Folding@home is 7.4.4 and it was released on 2014-03-19.

    Tags: Computerrelated Introductions In 2000, Bioinformatics, Computational Biology, Computational Chemistry, Crossplatform Software, Data Mining And Machine Learning Software, Distributed Computing Projects, Hidden Markov Models, Mathematical And Theoretical Biology, Molecular Dynamics Software, Molecular Modelling, Molecular Modelling Software, Playstation 3 Software, Proprietary Crossplatform Software, Protein Folds, Protein Structure, Simulation Software, Stanford University, Medical Technology, Medical Research Organizations, Science Software For Linux, Science Software For Macos, Science Software For Windows
  • LIGPLOT by European Bioinformatics Institute

    In bioinformatics LIGPLOT is a computer program that generates schematic 2-D representations of protein-ligand complexes from standard Protein Data Bank file input. The LIGPLOT is used to generate...

    Tags: Molecular Modelling Software
  • MOE by Chemical Computing Group

    Molecular Operating Environment (MOE) is a drug discovery software platform that integrates visualization, modeling and simulations, as well as methodology development, in one package. MOE...

    Tags: Molecular Modelling Software, Chemistry Software For Linux, Computational Chemistry Software
  • Molden

    Molden is a general molecular and electronic structure processing...

    Latest version of Molden is 5.0.6 and it was released on 2013-04-09.

    Tags: Molecular Modelling Software, Computational Chemistry Software, Chemistry Software For Linux
  • Extensible Computational Chemistry Environment by Pacific Northwest National Laboratory

    The Extensible Computational Chemistry Environment (ECCE, pronounced "etch-ā") provides a sophisticated graphical user interface, scientific visualization tools, and the underlying data management...

    Latest version of Extensible Computational Chemistry Environment (ECCE) is 7.0 and it was released on 2013-08-01.

    Tags: Molecular Modelling Software, Computational Chemistry Software
  • Avogadro

    Avogadro is a molecule editor and visualizer designed for cross-platform use in computational chemistry, molecular modeling, bioinformatics, materials science, and related areas. It is extensible...

    Latest version of Avogadro is Avogadro 1.2 and it was released on 2016-06-15.

    Tags: Free Chemistry Software, Free Software Programmed In C, Molecular Modelling Software, Computational Chemistry Software, Science Software That Uses Qt, Chemistry Software For Linux
  • UCSF Chimera by Resource for Biocomputing, Visualization, and Informatics (RBVI), UCSF

    UCSF Chimera (or simply Chimera) is an extensible program for interactive visualization and analysis of molecular structures and related data, including density maps, supramolecular assemblies,...

    Latest version of UCSF Chimera is 1.11.2 and it was released on 2016-12-02.

    Tags: Bioinformatics Software, Freeware, Molecular Modelling Software, Science Software
  • RasMol by Herbert J. Bernstein

    RasMol is a computer program written for molecular graphics visualization intended and used mainly to depict and explore biological macromolecule structures, such as those found in the Protein Data...

    Latest version of RasMol is 2.7.5.1 and it was released on 2009-07-17.

    Tags: Bioinformatics Software, Molecular Modelling Software, Free Science Software, Free Software Programmed In C, Free Educational Software
  • Modeller by University of California, San Francisco,Accelrys

    Modeller, often stylized as MODELLER, is a computer program used for homology modeling to produce models of protein tertiary structures and quaternary structures (rarer). It implements a method...

    Latest version of Modeller is 9.19 and it was released on 2017-07-25.

    Tags: Molecular Modelling Software, Bioinformatics Software, Computational Biology
  • Jmol by Jmol development team

    Jmol is computer software for molecular modelling chemical structures in 3-dimensions. Jmol returns a 3D representation of a molecule that may be used as a teaching tool, or for research e.g., in...

    Tags: Bioinformatics Software, Chemistry Software For Linux, Free Chemistry Software, Free Software Programmed In Java, Molecular Modelling Software
  • Coot by Paul Emsley,Kevin D. Cowtan

    The program Coot (Crystallographic Object-Oriented Toolkit) is used to display and manipulate atomic models of macromolecules, typically of proteins or nucleic acids, using 3D computer graphics. It...

    Latest version of Coot is 0.8.7 and it was released on 2016-11-08.

    Tags: Crystallography Software, Molecular Modelling Software, Bioinformatics Software, Free Science Software, Free Chemistry Software, Science Software That Uses Gtk, Science Software For Linux
  • BALL project by BALL project team

    BALL (pronounced "ball") is computer software consisting of the versatile C++ class framework Biochemical Algorithms Library (BALL), a set of algorithms and data structures for molecular modelling...

    Latest version of BALL project is 1.4.2 and it was released on 2013-01-28.

    Tags: C Libraries, Computational Chemistry Software, Molecular Modelling Software, Bioinformatics Software, Free Bioinformatics Software, Chemistry Software For Linux, Science Software That Uses Qt, Articles With Example C Code
  • WHAT IF by University of Groningen;,EMBL,Heidelberg;,CMBI,Radboud University Nijmegen;,Radboud University Nijmegen Medical Centre (Radboudumc),WHAT IF Foundation

    WHAT IF is a computer program used in a wide variety of computational (in silico) macromolecular structure research fields. The software provides a flexible environment to display, manipulate, and...

    Latest version of WHAT IF is 6.0 and it was released on {{Start date and age|2016|df=yes}}.

    Tags: Molecular Modelling Software, Bioinformatics Software, Protein Structure
  • Sirius by San Diego Supercomputer Center

    Sirius is a molecular modelling and analysis system developed at San Diego Supercomputer Center. Sirius is designed to support advanced user requirements that go beyond simple display of small...

    Latest version of Sirius is 1.2 and it was released on 2008-11-18.

    Tags: Molecular Modelling Software, Bioinformatics Software
  • ShelXle by Christian B. Hübschle

    The program ShelXle is a graphical user interface for the structure refinement program SHELXL. ShelXle combines an editor with syntax highlighting for the SHELXL-associated .ins (input) and .res...

    Latest version of ShelXle is 1.0.825 and it was released on 2017-01-28.

    Tags: Crystallography Software, Molecular Modelling Software, Bioinformatics Software, Free Science Software
  • Scigress by Fujitsu Limited

    Scigress, stylized SCiGRESS, is a software suite for molecular modelling, computational chemistry, drug design, and materials science, a successor to Computer Aided Chemistry (CAChe)...

    Latest version of Scigress is 2.7(3.2) and it was released on {{Start date and age|2016|05}}.

    Tags: Molecular Modelling Software, Computational Chemistry, Molecular Modelling, Bioinformatics Software, Physics Software, Computational Chemistry Software
  • QuteMol by ISTI,CNR

    QuteMol is an open source, interactive, molecular visualization system. QuteMol utilizes the current capabilities of modern GPUs through OpenGL shaders to offer an array of innovative visual...

    Latest version of QuteMol is 0.4.1 and it was released on 2007-06-06.

    Tags: Molecular Modelling Software, Free Science Software, Chemistry Software For Linux, Free 3d Graphics Software, Free Software Programmed In C, Bioinformatics Software, Software That Uses Wxwidgets
  • eMovie by Israel Structural Proteomics Center

    eMovie is a plug-in for PyMOL that makes the creation of molecular movies both easy and intuitive via a breakthrough storyboard interface, similar in nature to what is used in the creation of...

    Tags: Molecular Modelling Software, Data Visualization Software, Bioinformatics Software
  • Abalone by Agile Molecule

    Abalone is a general purpose molecular dynamics and molecular graphics program for simulations of bio-molecules in a periodic boundary conditions in explicit (flexible SPC water model) or in...

    Latest version of Abalone is 1.9.0 and it was released on 2016-05-17.

    Tags: Science Software, Molecular Modelling Software, Molecular Dynamics Software, Monte Carlo Software, Bioinformatics Software, Computational Chemistry Software
  • ICMBrowser by Molsoft LLC

    ICM-Browser is a free product of Molsoft, and provides access to structural biology data and protein families. It reads PDB or alignment files directly from online databases and provides a molecular...

    Latest version of ICM-Browser is 3.5-0 and it was released on February 21, 2007.

    Tags: Molecular Modelling Software, Computational Chemistry Software
  • RAPTOR by Bioinformatics Solutions Inc.

    RAPTOR is protein threading software used for protein structure prediction. It has been replaced by RaptorX, which is much more accurate than...

    Latest version of RAPTOR is 4.2 and it was released on {{Start date and age|2008|11}}.

    Tags: Bioinformatics Software, Molecular Modelling Software
  • Avizo

    Avizo (pronounce: ‘a-VEE-zo’) is a general-purpose commercial software application for scientific and industrial data visualization and analysis. Avizo is developed by FEI Visualization Sciences...

    Latest version of Avizo is 9.2 and it was released on {{Start date and age|2016|07}}.

    Tags: 3d Graphics Software, 3d Imaging, Computational Fluid Dynamics, Computer Vision Software, Data Visualization Software, Earth Sciences Graphics Software, Graphics Software, Image Processing Software, Image Segmentation, Mesh Generators, Molecular Dynamics Software, Molecular Modelling Software, Nondestructive Testing, Physics Software, Science Software, Simulation Software, Software That Uses Qt, Virtual Reality
  • ADF Info by Scientific Computing & Modelling

    Amsterdam Density Functional (ADF) is a program for first-principles electronic structure calculations that makes use of density functional theory (DFT). ADF was first developed in the early...

    Latest version of ADF Info is 2017.106 and it was released on June 2017.

    Tags: Computational Chemistry Software, Molecular Modelling Software, Molecular Dynamics Software, Density Functional Theory Software
  • Spartan by Wavefunction, Inc. & Q-Chem

    Spartan is a molecular modelling and computational chemistry application from Wavefunction. It contains code for molecular mechanics, semi-empirical methods, ab initio models, density functional...

    Latest version of Spartan is Spartan'16 and it was released on {{Start date and age|2016}}.

    Tags: Molecular Modelling Software, Computational Chemistry Software, Electronic Structure Methods, Monte Carlo Molecular Modelling Software
  • FLUKA Particle Transport Code by INFN,CERN

    FLUKA (FLUktuierende KAskade) is a fully integrated Monte Carlo simulation package for the interaction and transport of particles and nuclei in matter. FLUKA has many applications in particle...

    Latest version of FLUKA Particle Transport Code is FLUKA 2011.2c.0 and it was released on 15 Oct 2014.

    Tags: Fortran Software, Physics Software, Monte Carlo Molecular Modelling Software, Science Software For Linux, Linuxonly Software
  • Tinker by Jay Ponder Lab, Department of Chemistry, Washington University in St. Louis; Pengyu Ren Lab, Department of Biomedical Engineering, the University of Texas at Austin; Jean-Philip Piquemal Pierre and Marie Curie University

    Tinker, stylized as TINKER, is a computer software application for molecular dynamics simulation with a complete and general package for molecular mechanics and molecular dynamics, with some special...

    Latest version of Tinker is 8.1.2 and it was released on 2017-02-17.

    Tags: Science Software, Molecular Dynamics Software, Monte Carlo Molecular Modelling Software, Washington University In St Louis