plotsr: visualizing structural similarities and rearrangements between multiple genomes.
plotsr: visualizing structural similarities and rearrangements between multiple genomes.
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DOI：
10.1093/bioinformatics/btac196
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发表时间：
2022-05-13
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第三代基因组测序技术使高质量的基因组组装数量急剧增加。这允许比较单个物种的多个组装的基因组，并需要新的工具来可视化它们的结构特性。在这里，我们提出plotsr，一个有效的工具来可视化基因组之间的结构相似性和重排。它可用于在染色体水平上比较基因组或放大任何选定的区域。此外，plotsr可以通过区域标识符（例如基因或基因组标记）或连续特征（例如GC含量或多态性密度）的直方图跟踪来增强可视化。plotsr是作为python包实现的，并使用标准的matplotlib库进行绘图。它可以在GitHub（https：//github.com/schneebergerlab/plotsr）和bioconda（https：//anaconda.org/bioconda/plotsr）上以MIT许可证免费获得。 补充数据可在Bioinformatics在线获得。
Third-generation genome sequencing technologies have led to a sharp increase in the number of high-quality genome assemblies. This allows the comparison of multiple assembled genomes of individual species and demands new tools for visualizing their structural properties. Here, we present plotsr, an efficient tool to visualize structural similarities and rearrangements between genomes. It can be used to compare genomes on chromosome level or to zoom in on any selected region. In addition, plotsr can augment the visualization with regional identifiers (e.g. genes or genomic markers) or histogram tracks for continuous features (e.g. GC content or polymorphism density). plotsr is implemented as a python package and uses the standard matplotlib library for plotting. It is freely available under the MIT license at GitHub (https://github.com/schneebergerlab/plotsr) and bioconda (https://anaconda.org/bioconda/plotsr). Supplementary data are available at Bioinformatics online.