RESULTS: In this work, we introduce ModDotPlot, an interactive and alignment-free dot plot viewer. By approximating average nucleotide identity via a k-mer-based containment index, ModDotPlot produces accurate plots orders of magnitude faster than StainedGlass. We accomplish this through the use of a hierarchical modimizer scheme that can visualize the full 128 Mb genome of Arabidopsis thaliana in under 5 min on a laptop. ModDotPlot is bundled with a graphical user interface supporting real-time interactive navigation of entire chromosomes.
METHODS: ModDotPlot is available at https://github.com/marbl/ModDotPlot.
结果:在这项工作中,我们介绍了ModDotPlot,交互式和无对齐的点图查看器。通过基于k聚体的遏制指数近似平均核苷酸同一性,ModDotPlot比StainedGlass更快地产生精确的绘图。我们通过使用分层修饰方案来实现这一点,该方案可以在笔记本电脑上5分钟内可视化拟南芥的完整128Mbp基因组。ModDotPlot与图形用户界面捆绑在一起,支持整个染色体的实时交互式导航。
方法:ModDotPlot可在https://github.com/marbl/ModDotPlot获得。