DIADE, Univ Montpellier, CIRAD, IRD, Montpellier 34830, France.
Syngenta Seeds SAS, Saint-Sauveur 31790, France.
Bioinformatics. 2021 Dec 7;37(23):4556-4558. doi: 10.1093/bioinformatics/btab688.
Pangenomics evolved since its first applications on bacteria, extending from the study of genes for a given population to the study of all of its sequences available. While multiple methods are being developed to construct pangenomes in eukaryotic species there is still a gap for efficient and user-friendly visualization tools. Emerging graph representations come with their own challenges, and linearity remains a suitable option for user-friendliness.
We introduce Panache, a tool for the visualization and exploration of linear representations of gene-based and sequence-based pangenomes. It uses a layout similar to genome browsers to display presence absence variations and additional tracks along a linear axis with a pangenomics perspective.
Panache is available at github.com/SouthGreenPlatform/panache under the MIT License.
泛基因组学自首次应用于细菌以来不断发展，研究范围从特定群体的基因研究扩展到所有可用序列的研究。虽然正在开发多种方法来构建真核生物的泛基因组，但仍然缺乏高效且用户友好的可视化工具。新兴的图形表示形式带来了自身的挑战，而线性表示形式仍然是用户友好性的合适选择。
我们引入了 Panache，这是一种用于可视化和探索基于基因和基于序列的泛基因组线性表示形式的工具。它使用类似于基因组浏览器的布局，沿着线性轴显示存在缺失变化和其他轨道，并具有泛基因组学的视角。
Panache 可在 MIT 许可证下在 github.com/SouthGreenPlatform/panache 上获得。
