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Updated: Jun 5, 2025

Author Spotlight: Investigating the Role of Repetitive DNA Misregulation in Cancer Initiation and Immunotherapy Resistance
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AnVIL工作流:用于云实现的生物信息学分析管道的可运行工作流套件.

Sehyun Oh1,2, Kai Gravel-Pucillo1,2, Marcel Ramos1,2

  • 1Institute for Implementation Science in Population Health, City University of New York School of Public Health, New York, New York, USA.

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|December 13, 2024
PubMed
概括
此摘要是机器生成的。

安维尔工作流R套件简化了在安维尔平台上访问大规模基因组学数据和分析工具. 这套软件包赋予了研究人员权力,通过直接在R.中实现复杂的生物信息学工作流程的方便执行.

关键词:
安维尔 (AnVIL) 是一个城市.云计算是一种云计算.基因组学就是基因组学.R/生物导体 在工作流程的工作流程

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科学领域:

  • 基因组学就是基因组学.
  • 生物信息学是一种生物信息学.
  • 计算生物学 计算生物学

背景情况:

  • 测序和数据收集的进步产生了大量的生物数据集.
  • 基因组数据科学分析,可视化和信息实验室空间 (AnVIL) 提供基于云的基因组数据和工具访问.
  • 在AnVIL上执行复杂的生物信息工作流程对于缺乏广泛生物信息专业知识的研究人员来说可能具有挑战性.

研究的目的:

  • 引入AnVILWorkflow R包,旨在简化AnVIL托管的生物信息工作流程的执行.
  • 降低研究人员利用AnVIL可扩展的计算资源和大规模基因组学数据集的障碍.
  • 为了使R和非R工具在可重复的分析管道中无集成.

主要方法:

  • 开发AnVILWorkflow R包,其中包含用于云环境设置,数据格式化和结果检索的直观功能.
  • 通过三个不同的用例展示AnVILWorkflow实用程序:散装RNA-seq分析 (鱼),元基因组学分析 (bioBakery) 和数字病理图像处理 (PathML).
  • 利用R语法,以便用户友好地与AnVIL资源进行交互.

主要成果:

  • 安维尔工作流提供了简化访问安维尔的数据和分析工具.
  • 该软件包有助于执行复杂的生物信息工作流程,包括大量RNA-seq,元基因组学和数字病理学.
  • 关键功能包括用户友好的数据/工作流程浏览,R/非R工具的集成,以及无需直接管理的可扩展计算的访问.

结论:

  • 安维尔工作流显著降低了研究人员利用安维尔能力的障碍,特别是在探索性分析和批量处理方面.
  • 该包使更广泛的研究社区能够利用先进的基因组学工具和数据集,使用熟悉的R语法.
  • AnVILWorkflow提高了大规模基因组学数据分析中的可复制性和可访问性.