论文标题
sbmldiagrams：用于处理和可视化SBML布局和渲染的Python软件包
SBMLDiagrams: A python package to process and visualize SBML layout and render
论文作者
论文摘要
摘要：系统生物学标记语言（SBML）是交换生化模型的可扩展标准格式。 SBML的扩展之一是SBML布局和渲染包。这使建模者可以将生化模型描述为途径图。但是，到目前为止，几乎没有支持用户轻松地从SBML添加和检索此类信息。在此应用程序注释中，我们描述了一个新的Python软件包，称为SBMLDIAGrams。此软件包允许用户添加布局并渲染信息或使用直接的Python API检索信息。该软件包使用Skia-Python来支持图表的渲染，从而导致出口到PNG或PDF等公共格式。可用性：SBMLDIAGRAMS已公开可用并根据MIT开源许可获得许可。该软件包可用于所有主要平台。源代码已存放在github（github.com/sys-bio/sbmldiagrams）上。用户可以使用标准PIP安装机制安装软件包：PIP安装SBMLDIAGRAMS。联系人：[email protected]。
Summary: The Systems Biology Markup Language (SBML) is an extensible standard format for exchanging biochemical models. One of the extensions for SBML is the SBML Layout and Render package. This allows modelers to describe a biochemical model as a pathway diagram. However, up to now there has been little support to help users easily add and retrieve such information from SBML. In this application note, we describe a new Python package called SBMLDiagrams. This package allows a user to add layout and render information or retrieve it using a straightforward Python API. The package uses skia-python to support the rendering of the diagrams, allowing export to commons formats such as PNG or PDF. Availability: SBMLDiagrams is publicly available and licensed under the liberal MIT open-source license. The package is available for all major platforms. The source code has been deposited at GitHub (github.com/sys-bio/SBMLDiagrams). Users can install the package using the standard pip installation mechanism: pip install SBMLDiagrams. Contact: [email protected].
