StainedGlass: Interactive visualization of massive tandem repeat structures with identity heatmaps
StainedGlass: Interactive visualization of massive tandem repeat structures with identity heatmaps
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StainedGlass：具有身份热图的大规模串联重复结构的交互式可视化
DOI：
10.1101/2021.08.19.457003
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发表时间：
2021
期刊：
影响因子：
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通讯作者：
E. Eichler
中科院分区：
文献类型：
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作者：
Mitchell R. Vollger;Peter Kerpedjiev;A. Phillippy;E. Eichler
基因组重复序列的可视化和分析通常是通过使用点图来完成的;然而，具有多兆碱基重复序列的端粒到端粒组装体的出现需要新的可视化策略。在这里，我们介绍了一种可以生成出版质量图和交互式可视化的工具，它可以在全基因组范围内描绘多兆碱基重复结构的身份和方向。该工具可以快速揭示更高阶的结构，并改善对基因组中一些最复杂区域的进化历史的推断。可用性和实现SnakedGlass是使用Snakemake实现的，可以在MIT许可证下在https://mrvollger.github.io/StainedGlass/上获得开源。联系mvollger@uw.edu
Summary Visualization and analysis of genomic repeats is typically accomplished through the use of dot plots; however, the emergence of telomere-to-telomere assemblies with multi-megabase repeats requires new visualization strategies. Here, we introduce StainedGlass which can generate publication quality figures and interactive visualizations that depict the identity and orientation of multi-megabase repeat structures at a genome-wide scale. The tool can rapidly reveal higher-order structures and improve the inference of evolutionary history for some of the most complex regions of genomes. Availability and implementation StainedGlass is implemented using Snakemake and is available open source under the MIT license at https://mrvollger.github.io/StainedGlass/. Contact mvollger@uw.edu