使用 snipit 进行可发布的单核苷酸多态性可视化。
Publication-ready single nucleotide polymorphism visualization with snipit.
机构信息
Institute of Ecology and Evolution, University of Edinburgh, Edinburgh, EH93FL, United Kingdom.
Victorian Infectious Diseases Reference Laboratory, The Royal Melbourne Hospital, Parkville, Victoria, VIC 3052, Australia.
出版信息
Bioinformatics. 2024 Aug 2;40(8). doi: 10.1093/bioinformatics/btae510.
SUMMARY
Snipit is an analysis and visualization tool designed for summarizing single nucleotide polymorphisms in sequences in comparison to a reference sequence. This tool efficiently catalogues nucleotide and amino acid differences, enabling clear comparisons through customizable, publication-ready figures. With features such as configurable colour palettes, customizable record sorting, and the ability to output figures in multiple formats, snipit offers a user-friendly interface for researchers across diverse disciplines. In addition, snipit includes a specialized recombi-mode for illustrating recombination patterns, which can highlight otherwise often difficult-to-detect relationships between sequences.
AVAILABILITY AND IMPLEMENTATION
Snipit is an open-source python-based tool that is hosted on GitHub under a GNU-GPL 3.0 licence (https://github.com/aineniamh/snipit). It can be installed from PyPi using pip. Source code and additional documentation can be found on the GitHub repository.
摘要
Snipit 是一个分析和可视化工具，用于比较参考序列对序列中单核苷酸多态性（SNP）进行总结。该工具可以有效地对核苷酸和氨基酸差异进行分类，通过可定制的、适合出版的图形进行清晰的比较。Snipit 具有可配置调色板、可定制记录排序以及以多种格式输出图形等功能，为不同学科的研究人员提供了一个用户友好的界面。此外，Snipit 还包含一个专门的 recombi 模式，用于说明重组模式，可以突出显示序列之间通常难以检测到的关系。
可用性和实现
Snipit 是一个基于 Python 的开源工具，它在 GitHub 上以 GNU-GPL 3.0 许可证（https://github.com/aineniamh/snipit）托管。可以使用 pip 从 PyPi 安装。源代码和其他文档可以在 GitHub 存储库中找到。
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