VueGen:自动化科学报告的生成
Sebastián Ayala-Ruano1, Henry Webel1, Alberto Santos1
1Multiomics Network Analytics Group, Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Kongens, Lyngby 2800, Denmark.
Bioinformatics advances
|July 8, 2025
概括
VueGen自动化了从omics数据输出的生物信息学报告生成. 这种工具使得没有广泛编码技能的研究人员能够从他们的发现中创建全面,可重复和透明的报告.
科学领域:
- 生物信息学是一种生物信息学.
- 计算生物学 计算生物学
- 数据科学数据科学数据科学
背景情况:
- Omics数据分析涉及多个工具,生成多种不同的输出文件.
- 将这些结果编制成综合性报告对非生物信息学家来说是一个挑战.
- 缺乏精简的报告阻碍了研究中的可复制性和透明度.
研究的目的:
- 介绍VueGen,这是一个用于自动化从生物信息学输出的报告生成的新工具.
- 为了使研究人员拥有最小的编码经验,能够有效地沟通他们的发现.
- 为了提高omics数据分析报告的可复制性和透明度.
主要方法:
- VueGen接受生物信息输出文件 (图表,表格,网络,文本,HTML) 的目录.
- 用户指定所需的报告格式,包括文档 (PDF,HTML,DOCX),演示文稿 (PPTX,Reveal.js),Jupyter笔记本和Streamlit应用程序.
- 该工具自动将各种输出编译成用户选择的格式.
主要成果:
- VueGen成功地自动化了从各种生物信息学输出的综合报告的创建.
- 通过两个案例研究证明了功能.
- 支持的输出格式包括文档,演示文稿,Jupyter笔记本和Web应用程序.
结论:
- VueGen降低了研究人员从omics数据生成报告的障碍.
- 该工具促进了有效的沟通,并提高了生物信息学分析的可复制性.
- VueGen可以作为一个Python包,Docker图像,nf-core模块和桌面应用程序.
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