Bioclipse: an open source workbench for chemo- and bioinformatics.
Bioclipse: an open source workbench for chemo- and bioinformatics.
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DOI：
10.1186/1471-2105-8-59
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发表时间：
2007-02-22
影响因子：
3
通讯作者：
Wikberg JE
中科院分区：
文献类型：
--
作者：
Spjuth O;Helmus T;Willighagen EL;Kuhn S;Eklund M;Wagener J;Murray-Rust P;Steinbeck C;Wikberg JE
需要软件应用程序为用户提供完整且可扩展的化学和生物信息学工具包，可从单个工作台访问。商业软件包价格昂贵且封闭源代码，因此它们不允许最终用户修改算法和添加自定义功能。现有的开源项目更注重提供一个框架来集成现有的、单独安装的生物信息学包，而不是提供用户友好的界面。此前尚未发布任何开源化学信息学工作台，也没有成功尝试将化学和生物信息学整合到单一框架中。 Bioclipse 是化学和生物信息学资源的高级工作台，例如分子、蛋白质、序列、光谱和脚本。它提供 2D 编辑、3D 可视化、文件格式转换、化学性质计算等；所有这些都完全集成到用户友好的桌面应用程序中。编辑支持标准功能，例如剪切和粘贴、拖放以及撤消/重做。 Bioclipse 使用 Java 编写，基于 Eclipse 富客户端平台，具有最先进的插件架构。这使得 Bioclipse 比其他系统更具优势，因为它可以轻松地在任何所需方向上扩展功能。 Bioclipse 是一个强大的生物和化学信息学工作台以及先进的集成平台。丰富的功能、直观的用户界面和强大的插件架构使 Bioclipse 成为化学和生物信息学领域最先进、用户友好的开源工作台。 Bioclipse 是根据 Eclipse 公共许可证 (EPL) 发布的，这是一种开源许可证，对外部插件许可没有任何限制；它对开源插件和商业插件完全开放。 Bioclipse 可在 上免费获得。
There is a need for software applications that provide users with a complete and extensible toolkit for chemo- and bioinformatics accessible from a single workbench. Commercial packages are expensive and closed source, hence they do not allow end users to modify algorithms and add custom functionality. Existing open source projects are more focused on providing a framework for integrating existing, separately installed bioinformatics packages, rather than providing user-friendly interfaces. No open source chemoinformatics workbench has previously been published, and no sucessful attempts have been made to integrate chemo- and bioinformatics into a single framework. Bioclipse is an advanced workbench for resources in chemo- and bioinformatics, such as molecules, proteins, sequences, spectra, and scripts. It provides 2D-editing, 3D-visualization, file format conversion, calculation of chemical properties, and much more; all fully integrated into a user-friendly desktop application. Editing supports standard functions such as cut and paste, drag and drop, and undo/redo. Bioclipse is written in Java and based on the Eclipse Rich Client Platform with a state-of-the-art plugin architecture. This gives Bioclipse an advantage over other systems as it can easily be extended with functionality in any desired direction. Bioclipse is a powerful workbench for bio- and chemoinformatics as well as an advanced integration platform. The rich functionality, intuitive user interface, and powerful plugin architecture make Bioclipse the most advanced and user-friendly open source workbench for chemo- and bioinformatics. Bioclipse is released under Eclipse Public License (EPL), an open source license which sets no constraints on external plugin licensing; it is totally open for both open source plugins as well as commercial ones. Bioclipse is freely available at .
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DOI：
10.1021/ci025584y
发表时间：
2003-03
期刊：
Journal of chemical information and computer sciences
影响因子：
--
作者：
Steinbeck C;Han Y;Kuhn S;Horlacher O;Luttmann E;Willighagen E
通讯作者：
Willighagen E
DOI：
10.1021/ci980083r
发表时间：
1998-11-01
期刊：
JOURNAL OF CHEMICAL INFORMATION AND COMPUTER SCIENCES
影响因子：
--
作者：
Munk, ME
通讯作者：
Munk, ME
影响因子：
14.9
作者：
Pillai S;Silventoinen V;Kallio K;Senger M;Sobhany S;Tate J;Velankar S;Golovin A;Henrick K;Rice P;Stoehr P;Lopez R
通讯作者：
Lopez R
DOI：
10.1021/ci990052b
发表时间：
1999-11-01
期刊：
JOURNAL OF CHEMICAL INFORMATION AND COMPUTER SCIENCES
影响因子：
--
作者：
Murray-Rust, P;Rzepa, HS
通讯作者：
Rzepa, HS
影响因子：
4.6
作者：
Krause, S;Willighagen, E;Steinbeck, C
通讯作者：
Steinbeck, C