一堆管道:生物信息学软件的概述,用于分析数据的元编码数据分析
Ali Hakimzadeh1, Alejandro Abdala Asbun2, Davide Albanese3
1Institute of Ecology and Earth Sciences, University of Tartu, Tartu, Estonia.
Molecular ecology resources
|August 7, 2023
概括
环境DNA (eDNA) 的元编码是一个强大的生物多样性监测工具. 本综述比较了32个管道,以帮助研究人员选择最适合他们特定的生态和生物信息学需求的管道.
科学领域:
- 生态生态学 生态生态学
- 生物信息学是一种生物信息学.
- 分子生物学分子生物学
背景情况:
- 环境DNA (eDNA) 的元编码越来越多地用于生物多样性监测.
- 有效的生物多样性评估依赖于从高通量测序数据中准确识别种类.
- 对于古生物,细菌和真核生物而言,存在众多通用和分类特定的原始体.
研究的目的:
- 审查和比较32个安普利康处理管道用于eDNA元编码.
- 协助研究人员根据研究目标和用户专业知识选择合适的管道.
- 提供管道属性的全面概述,包括数据要求和操作系统.
主要方法:
- 对32个现有的元编码数据分析管道进行文献综述和比较分析.
- 根据输入数据要求,支持的操作系统和特定特征对管道的评估.
- 管道的分类,以突出其独特的哲学,优势和局限性.
主要成果:
- 识别了32个不同的安普利康处理管道用于metabarcoding数据.
- 详细说明了每个管道的输入数据要求和操作系统兼容性.
- 突出了不同管道架构固有的各种优势和局限性.
结论:
- 选择正确的元编码管道对于成功监测生物多样性至关重要.
- 管道的选择应与特定的研究目标和用户生物信息学熟练程度保持一致.
- 本综述为导航eDNA数据分析工具的复杂格局提供了有价值的资源.
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