贝叶斯混合指数和基因组克林估计与R包gghybrid
1Department of Ecology and Vertebrate Zoology, Faculty of Biology and Environmental Protection, University of Lodz, Łódź, Poland.
Molecular ecology resources
|December 8, 2023
概括
人群之间的混合或交配是常见的. 本研究介绍了gghybrid,这是一款用于分析基因组基因和杂交索引的R包,有助于研究适应性进化和物种化.
科学领域:
- 进化生物学 进化生物学
- 遗传学 遗传学 是一个
- 生物信息学是一种生物信息学.
背景情况:
- 混合,来自不同种群的个体的交配,是一种广泛的现象,对适应性进化,繁殖隔离和物种化有重大影响.
- 基因组克林分析是一种强大的方法,可以推断基因流动模式,并在混合种群中识别选择下的位置,特别是当地理克林不适合时.
- 分析混合物比例和基因组基因对理解自然混合区的进化过程至关重要.
研究的目的:
- 介绍gghybrid,一个新的R包,用于贝叶斯对混合指数和基因组基因的估计.
- 提供一个灵活和易于使用的工具,用于分析基因组层面的添加物,跨越多种类型层面.
- 为了促进进化过程的研究,如在混合种群中的适应性内进和生殖隔离.
主要方法:
- 开发了gghybrid R包,用于贝叶斯对混合指数的估计和菲茨帕特里克的逻辑-逻辑基因组系.
- 使用双基数据,兼容结构输入文件格式,支持任何 ploidy 级别.
- 包含用于独立分析个体 (混合指数) 和位置 (斜率估计) 的功能,使并行化成为可能.
主要成果:
- gghybrid提供简单灵活的贝叶斯对混合指数和基因组基因的估计.
- 该软件包适用于小型和大型数据集,并且可以处理任何操作.
- 模拟表明,使用广泛适用的信息标准 (waic) 优先进行模型比较,并且应避免贝叶斯后部分布/p值用于位置选择.
结论:
- gghybrid对于研究混合物及其进化后果的研究人员来说是一个有价值的新工具.
- 该套件增强了推断基因流动和识别混合种群中选择下的基因位点的能力.
- 突出了基因组临床分析中模型选择和位点识别的最佳实践,强调了waic对传统p值的实用性.
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