PanExplorer：一个用于细菌泛基因组探索性分析和可视化的基于网络的工具。
PanExplorer: a web-based tool for exploratory analysis and visualization of bacterial pan-genomes.
机构信息
CIRAD, UMR ASTRE, F-97170 Petit-Bourg, France.
French Institute of Bioinformatics (IFB)-South Green Bioinformatics Platform, Bioversity, CIRAD, INRAE, IRD, F-34398 Montpellier, France.
出版信息
Bioinformatics. 2022 Sep 15;38(18):4412-4414. doi: 10.1093/bioinformatics/btac504.
MOTIVATION
As pan-genome approaches are largely employed for bacterial comparative genomics and evolution analyses, but still difficult to be carried out by non-bioinformatician biologists, there is a need for an innovative tool facilitating the exploration of bacterial pan-genomes.
RESULTS
PanExplorer is a web application providing various genomic analyses and reports, giving intuitive views that enable a better understanding of bacterial pan-genomes. As an example, we produced the pan-genome for 121 Anaplasmataceae strains (including 30 Ehrlichia, 15 Anaplasma, 68 Wolbachia).
AVAILABILITY AND IMPLEMENTATION
PanExplorer is written in Perl CGI and relies on several JavaScript libraries for visualization (hotmap.js, MauveViewer, CircosJS). It is freely available at http://panexplorer.southgreen.fr. The source code has been released in a GitHub repository https://github.com/SouthGreenPlatform/PanExplorer. A documentation section is available on PanExplorer website.
动机
由于泛基因组方法在细菌比较基因组学和进化分析中得到了广泛应用，但对于非生物信息学家的生物学家来说仍然难以实施，因此需要一种创新的工具来帮助探索细菌的泛基因组。
结果
PanExplorer 是一个提供各种基因组分析和报告的网络应用程序，提供直观的视图，使人们能够更好地理解细菌的泛基因组。例如，我们生成了 121 株 Anaplasmataceae 菌株（包括 30 株 Ehrlichia、15 株 Anaplasma 和 68 株 Wolbachia）的泛基因组。
可用性和实现
PanExplorer 是用 Perl CGI 编写的，依赖于几个 JavaScript 库进行可视化（hotmap.js、MauveViewer、CircosJS）。它可在 http://panexplorer.southgreen.fr 免费获得。源代码已在 GitHub 存储库 https://github.com/SouthGreenPlatform/PanExplorer 中发布。PanExplorer 网站上提供了一个文档部分。
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