A description of the genetic makeup of a species based on a single genome is often insufficient because it ignores the variability in gene repertoire among multiple strains. The estimation of the pangenome of a species is a solution to this issue as it provides an overview of genes that are shared by all strains and genes that are present in only some of the genomes. These different sets of genes can then be analyzed functionally to explore correlations with unique phenotypes and adaptations. This protocol presents the usage of Roary, a Linux-native pangenome application. Roary is a straightforward software that provides 1) an overview about core and accessory genes for those interested in general trends and, also, 2) detailed information on gene presence/absence in each genome for in-depth analyses. Results are provided both in text and graphic format.

中文翻译：

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用Roary估计Pangenomes。

对基于单个基因组的物种的遗传构成的描述通常是不够的，因为它忽略了多个菌株之间基因库的可变性。物种全基因组的估计是解决此问题的方法，因为它提供了所有菌株共有的基因和仅存在于某些基因组中的基因的概述。然后可以对这些不同的基因集进行功能分析，以探索与独特表型和适应性的相关性。该协议介绍了Linux本机泛基因组应用程序Roary的用法。Roary是一款简单易用的软件，可提供1）对一般趋势感兴趣的人的核心和辅助基因的概述，以及2）有关每个基因组中基因存在/不存在的详细信息，以进行深入分析。