Gilchrist Cameron L M, Chooi Yit-Heng
School of Molecular Sciences, The University of Western Australia, Crawley, WA 6009, Australia.
Bioinformatics. 2021 Aug 25;37(16):2473-2475. doi: 10.1093/bioinformatics/btab007.
Genes involved in biological pathways are often collocalised in gene clusters, the comparison of which can give valuable insights into their function and evolutionary history. However, comparison and visualization of gene cluster similarity is a tedious process, particularly when many clusters are being compared. Here, we present clinker, a Python based tool and clustermap.js, a companion JavaScript visualization library, which used together can automatically generate accurate, interactive, publication-quality gene cluster comparison figures directly from sequence files.
Source code and documentation for clinker and clustermap.js is available on GitHub (github.com/gamcil/clinker and github.com/gamcil/clustermap.js, respectively) under the MIT license. clinker can be installed directly from the Python Package Index via pip.
Supplementary data are available at Bioinformatics online.
参与生物途径的基因通常共定位在基因簇中，对其进行比较可以深入了解它们的功能和进化历史。然而，基因簇相似性的比较和可视化是一个繁琐的过程，尤其是在比较多个簇时。在这里，我们展示了clinker（一个基于Python的工具）和clustermap.js（一个配套的JavaScript可视化库），它们一起使用可以直接从序列文件自动生成准确、交互式、具有发表质量的基因簇比较图。
clinker和clustermap.js的源代码及文档分别在GitHub上（github.com/gamcil/clinker和github.com/gamcil/clustermap.js）以MIT许可提供。clinker可以通过pip直接从Python包索引中安装。
补充数据可在《生物信息学》在线获取。
