ViWrap:一种模块化管道,用于识别,分类,分类和预测来自元基因组的病毒与病毒宿主之间的关系
Zhichao Zhou1, Cody Martin1,2, James C Kosmopoulos1,2
1Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, 53706, USA.
iMeta
|December 28, 2023
概括
ViWrap是一个新的Python管道,集成了多个生物信息学工具,用于从元基因组分析病毒基因组. 该工具简化了对人类和环境微生物群中的病毒的研究.
科学领域:
- 病毒学 病毒学
- 生物信息学是一种生物信息学.
- 微生物组研究 微生物组研究
背景情况:
- 病毒在人类和环境微生物组中至关重要,但由于培养困难和缺乏模型系统,研究它们具有挑战性.
- 从元基因组数据分析未培养的病毒基因组的计算方法对于选庞大的测序数据集至关重要.
- 现有的工具缺乏整合,阻碍了全面的病毒研究工作流程.
研究的目的:
- 开发一个集成的,模块化计算管道,从元基因组数据进行全面的病毒分析.
- 为识别,注释和描述病毒基因组提供标准化和可复制的工作流.
- 促进对不同的人类和环境系统中的病毒的研究.
主要方法:
- 开发了ViWrap,一个使用Python的模块化管道.
- 将多个现有的生物信息学工具集成到一个平台上.
- 启用了各种分析步骤:识别,注释,基因组分类,聚类,分类学分配,宿主预测,质量评估,总结和可视化.
主要成果:
- ViWrap提供了一个全面的工作流程,用于对病毒进行广泛而严格的表征.
- 该管道支持对元基因组,病毒组和微生物基因组的分析.
- 结果是标准化的,可重现的,直观可视化的.
结论:
- ViWrap提供了一个灵活和可扩展的平台,用于研究各种微生物组环境中的病毒.
- 该工具解决了对病毒转基因组学综合解决方案的需求.
- ViWrap是公开可用的,促进了更广泛的可访问性和在病毒研究中的使用.
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