RhierBAPS: An R implementation of the population clustering algorithm hierBAPS.
RhierBAPS: An R implementation of the population clustering algorithm hierBAPS.
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DOI：
10.12688/wellcomeopenres.14694.1
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发表时间：
2018
影响因子：
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通讯作者：
Corander J
中科院分区：
文献类型：
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作者：
Tonkin-Hill G;Lees JA;Bentley SD;Frost SDW;Corander J
识别序列数据集集合中的结构仍然是基因组学中的一个常见问题。hierBAPS是一种用于识别单倍体基因组中种群结构的流行算法，以前仅作为MATLAB二进制可用。我们提供了一个更容易安装和使用的R实现，使整个管道自动化。此外，我们允许使用多个处理器，改进算法的默认设置，并提供ggtree库的接口，以便对聚类结果进行信息说明。我们的目标是，这一套资料有助于了解和传播该方法，并提高人口结构分析的可重复性。
Identifying structure in collections of sequence data sets remains a common problem in genomics. hierBAPS, a popular algorithm for identifying population structure in haploid genomes, has previously only been available as a MATLAB binary. We provide an R implementation which is both easier to install and use, automating the entire pipeline. Additionally, we allow for the use of multiple processors, improve on the default settings of the algorithm, and provide an interface with the ggtree library to enable informative illustration of the clustering results. Our aim is that this package aids in the understanding and dissemination of the method, as well as enhancing the reproducibility of population structure analyses.