CoRC：COPASI R 连接器。
CoRC: the COPASI R Connector.
作者信息
Förster Jonas, Bergmann Frank T, Pahle Jürgen
机构信息
Immunotherapy and Immunoprevention, German Cancer Research Center (DKFZ), INF280, 69120 Heidelberg, Germany.
Modelling of Biological Processes, BioQuant/COS, Heidelberg University, INF267, 69120 Heidelberg, Germany.
出版信息
Bioinformatics. 2021 Sep 9;37(17):2778-2779. doi: 10.1093/bioinformatics/btab033.
MOTIVATION
COPASI is a biochemical simulator and model analyzer which has found widespread use in academic research, teaching and beyond. One of COPASI's strengths is its graphical user interface, and this is what most users work with. COPASI also provides a command-line tool. So far, an intuitive scripting interface that allows the creation and documentation of systems biology workflows was missing though.
RESULTS
We have developed CoRC, the COPASI R Connector, an R package which provides a high-level scripting interface for COPASI. It closely mirrors the thought process of a (graphical interface) user and should therefore be very easy to use. This allows for complex workflows to be reproducibly scripted, utilizing COPASI's powerful analytic toolset in combination with R's extensive analysis and package ecosystem.
AVAILABILITY AND IMPLEMENTATION
CoRC is a free and open-source R package, available via GitHub at https://jpahle.github.io/CoRC/ under the Artistic-2.0 license.
SUPPLEMENTARY INFORMATION
We provide tutorial articles as well as several example scripts on the project's website.
动机
COPASI是一款生化模拟器和模型分析器，在学术研究、教学及其他领域都有广泛应用。COPASI的优势之一在于其图形用户界面，这也是大多数用户使用的界面。COPASI还提供了一个命令行工具。然而，到目前为止，还缺少一个直观的脚本接口来创建和记录系统生物学工作流程。
结果
我们开发了CoRC，即COPASI R连接器，这是一个R包，为COPASI提供了一个高级脚本接口。它紧密反映了（图形界面）用户的思维过程，因此应该非常易于使用。这使得复杂的工作流程能够通过可重复的脚本编写，利用COPASI强大的分析工具集以及R广泛的分析和软件包生态系统。
可用性与实现
CoRC是一个免费的开源R包，可通过GitHub在https://jpahle.github.io/CoRC/上获取，遵循Artistic-2.0许可协议。
补充信息
我们在项目网站上提供了教程文章以及几个示例脚本。
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