Molecule Editor
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Molecule Editor
A molecule editor is a computer program for creating and modifying representations of chemical structures. Molecule editors can manipulate chemical structure representations in either a simulated two-dimensional space or three-dimensional space, via 2D computer graphics or 3D computer graphics, respectively. Two-dimensional output is used as illustrations or to query chemical databases. Three-dimensional output is used to build molecular models, usually as part of molecular modelling software packages. Database molecular editors such as Leatherface, RECAP, and Molecule Slicer allow large numbers of molecules to be modified automatically according to rules such as 'deprotonate carboxylic acids' or 'break exocyclic bonds' that can be specified by a user. Molecule editors typically support reading and writing at least one file format or line notation. Examples of each include Molfile and simplified molecular input line entry specification (SMILES), respectively. Files generated by m ...
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Computer Program
A computer program is a sequence or set of instructions in a programming language for a computer to execute. Computer programs are one component of software, which also includes documentation and other intangible components. A computer program in its human-readable form is called source code. Source code needs another computer program to execute because computers can only execute their native machine instructions. Therefore, source code may be translated to machine instructions using the language's compiler. (Assembly language programs are translated using an assembler.) The resulting file is called an executable. Alternatively, source code may execute within the language's interpreter. If the executable is requested for execution, then the operating system loads it into memory and starts a process. The central processing unit will soon switch to this process so it can fetch, decode, and then execute each machine instruction. If the source code is requested for executio ...
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Visage Imaging
Visage may refer to: *A synonym of face * Visage Mobile, an American software as a service company * Visage, Georgia, a community in the United States * ''Visage'' (film), also known as ''Face'', a 2009 French film * ''Visage'' (video game), a survival horror game by SadSquare Studio. *"Visage", a 2003 episode of ''Smallville'' * Venus In Situ Atmospheric and Geochemical Explorer (VISAGE), a 2017 Venus lander proposal by NASA Music *"Visage", a 1961 electro-acoustic work by Luciano Berio *Visage (band), a British pop group ** ''Visage'' (Visage album), a 1980 album by Visage ** "Visage" (song), a 1981 song by Visage ** ''Visage'' (EP), a 1981 compilation EP by Visage ** ''Visage'' (video), a 1986 compilation video by Visage * ''Visage'' (Rob Brown album), a 2000 album by jazz saxophonist Rob Brown *"Visage", a 1968 song by Nicoletta (singer) People with the surname * Bertrand Visage, French writer *Michelle Visage Michelle Lynn Case (nee Shupack), better known as Michelle V ...
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Rich Client Platform
The rich client platform (RCP) is a programmer tool that makes it easier to integrate independent software components, where most of the data processing occurs on the client side. Overview RCP is a software consisting of the following components: * A core (microkernel), lifecycle manager * A standard bundling framework * A portable widget toolkit * File buffers, text handling, text editors * A workbench (views, editors, perspectives, wizards) * Data binding * Update manager With an RCP, programmers can build their own applications on existing computing platforms. Instead of having to write a complete application from scratch, they can benefit from proven and tested features of the framework provided by the platform. Building on a platform facilitates faster application development and integration, while the cross-platform burden is taken on by the platform developers. The platform allows the seamless integration of independent software modules like graphic tools, spreadshee ...
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Java (programming Language)
Java is a high-level, class-based, object-oriented programming language that is designed to have as few implementation dependencies as possible. It is a general-purpose programming language intended to let programmers ''write once, run anywhere'' ( WORA), meaning that compiled Java code can run on all platforms that support Java without the need to recompile. Java applications are typically compiled to bytecode that can run on any Java virtual machine (JVM) regardless of the underlying computer architecture. The syntax of Java is similar to C and C++, but has fewer low-level facilities than either of them. The Java runtime provides dynamic capabilities (such as reflection and runtime code modification) that are typically not available in traditional compiled languages. , Java was one of the most popular programming languages in use according to GitHub, particularly for client–server web applications, with a reported 9 million developers. Java was originally develo ...
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Cross-platform
In computing, cross-platform software (also called multi-platform software, platform-agnostic software, or platform-independent software) is computer software that is designed to work in several computing platforms. Some cross-platform software requires a separate build for each platform, but some can be directly run on any platform without special preparation, being written in an interpreted language or compiled to portable bytecode for which the interpreters or run-time packages are common or standard components of all supported platforms. For example, a cross-platform application may run on Microsoft Windows, Linux, and macOS. Cross-platform software may run on many platforms, or as few as two. Some frameworks for cross-platform development are Codename One, Kivy, Qt, Flutter, NativeScript, Xamarin, Phonegap, Ionic, and React Native. Platforms ''Platform'' can refer to the type of processor (CPU) or other hardware on which an operating system (OS) or application runs ...
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Eclipse Public License
The Eclipse Public License (EPL) is a free and open source software license most notably used for the Eclipse IDE and other projects by the Eclipse Foundation. It replaces the Common Public License (CPL) and removes certain terms relating to litigations related to patents.In section 7, this sentence is in CPL 1.0, but not EPL 1.0: "If Recipient institutes patent litigation against a Contributor with respect to a patent applicable to software (including a cross-claim or counterclaim in a lawsuit), then any patent licenses granted by that Contributor to such Recipient under this Agreement shall terminate as of the date such litigation is filed." The Eclipse Public License is designed to be a business-friendly free software license, and features weaker copyleft provisions than licenses such as the GNU General Public License (GPL). The receiver of EPL-licensed programs can use, modify, copy and distribute the work and modified versions, in some cases being obligated to release ...
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Bioclipse
The Bioclipse project is a Java-based, open-source, visual platform for chemo- and bioinformatics based on the Eclipse Rich Client Platform (RCP). It gained scripting functionality in 2009, and a command line version in 2021. Like any RCP application, Bioclipse uses a plugin architecture that inherits basic functionality and visual interfaces from Eclipse, such as help system, software updates, preferences, cross-platform deployment etc. Via its plugins, Bioclipse provides functionality for chemo- and bioinformatics, and extension points that easily can be extended by other, possibly proprietary, plugins to provide additional functionality. The first stable release of Bioclipse includes a Chemistry Development Kit (CDK) plugin to provide a chemoinformatic backend, a Jmol plugin for 3D-visualization of molecules, and a BioJava plugin for sequence analysis. Recently, the R platform, using StatET, and OpenTox were added. Bioclipse is developed as a collaboration between the Prot ...
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GNU Lesser General Public License
The GNU Lesser General Public License (LGPL) is a free-software license published by the Free Software Foundation (FSF). The license allows developers and companies to use and integrate a software component released under the LGPL into their own (even proprietary) software without being required by the terms of a strong copyleft license to release the source code of their own components. However, any developer who modifies an LGPL-covered component is required to make their modified version available under the same LGPL license. For proprietary software, code under the LGPL is usually used in the form of a shared library, so that there is a clear separation between the proprietary and LGPL components. The LGPL is primarily used for software libraries, although it is also used by some stand-alone applications. The LGPL was developed as a compromise between the strong copyleft of the GNU General Public License (GPL) and more permissive licenses such as the BSD licenses and the MI ...
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BALLView
A ball is a round object (usually spherical, but can sometimes be ovoid) with several uses. It is used in ball games, where the play of the game follows the state of the ball as it is hit, kicked or thrown by players. Balls can also be used for simpler activities, such as catch or juggling. Balls made from hard-wearing materials are used in engineering applications to provide very low friction bearings, known as ball bearings. Black-powder weapons use stone and metal balls as projectiles. Although many types of balls are today made from rubber, this form was unknown outside the Americas until after the voyages of Columbus. The Spanish were the first Europeans to see the bouncing rubber balls (although solid and not inflated) which were employed most notably in the Mesoamerican ballgame. Balls used in various sports in other parts of the world prior to Columbus were made from other materials such as animal bladders or skins, stuffed with various materials. As balls are one ...
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Avogadro (software)
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 via a plugin architecture. Features * Molecule builder-editor for Windows, Linux, Unix, and macOS. * All source code is licensed under the GNU General Public License (GPL) version 2. * Supported languages include: Chinese, English, French, German, Italian, Russian, Spanish, and Polish. * Supports multi-threaded rendering and computation. * Plugin architecture for developers, including rendering, interactive tools, commands, and Python scripts. * OpenBabel import of files, input generation for multiple computational chemistry packages, X-ray crystallography X-ray crystallography is the experimental science determining the atomic and molecular structure of a crystal, in which the crystalline structure causes a beam of incident X-rays to diffract into many specific directions. ...
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Agile Molecule
Agile may refer to: * Agile, an entity that possesses agility Project management * Agile software development, a development method * Agile construction, iterative and incremental construction method * Agile learning, the application of incremental and iterative methods to learning processes * Agile manufacturing, an organization able to respond quickly to customer needs and market changes Military * AIM-95 Agile, an air-to-air missile * HMS ''Agile'', a never-built ''Amphion''-class submarine * Project AGILE, a 1960s ARPA program * USS ''Agile'', two minesweepers Other uses * AGILE (satellite) (''Astro-rivelatore Gamma a Immagini LEggero''), an astronomical satellite of the Italian Space Agency * Agile (horse) (born 1902), American thoroughbred racehorse, winner of the 1905 Kentucky Derby * Agile (producer) (born 1975), Canadian hip-hop music producer * Agile, a member of the X-Hunters in the video game ''Mega Man X2'' * Chevrolet Agile, a subcompact car * Wallis WA-116 Ag ...
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Ascalaph Designer
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 classical molecular modelling ORCA, NWChem, Firefly, CP2K and MDynaMix . The molecular mechanics calculations cover model building, energy optimizations and molecular dynamics. Firefly (formerly named PC GAMESS) covers a wide range of quantum chemistry methods. Ascalaph Designer is free and open-source software, released under the GNU General Public License, version 2 (GPLv2). Key features Uses See also * List of software for molecular mechanics modeling * Molecular design software * Molecule editor * Abalone Abalone ( or ; via Spanish , from Rumsen ''aulón'') is a common name for any of a group of small to very large marine gastropod molluscs in the family Haliotidae. Other common names are ear shells, sea ears, and, rarely, muttonfish or mutto ... References Ext ...
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