DNA metabarcoding is increasingly used as a tool to assess biodiversity in research and environmental management. Powerful analysis software exists to process raw data. However, the translation of sequence read data into biological information and downstream analyses may be difficult for end users with limited expertise in bioinformatics. Thus, there is a growing need for easy-to-use, graphical user interface (GUI) software to analyse and visualise DNA metabarcoding data. Here, we present TaxonTableTools (TTT), a new platform-independent GUI that aims to fill this gap by providing simple, reproducible analysis and visualisation workflows. At its base, TTT uses a "TaXon table", which is a data format that can be generated easily within TTT from two input files: a read table and a taxonomy table obtained using various published metabarcoding pipelines. TTT analysis and visualisation modules include Venn diagrams to compare taxon overlap among replicates, samples, or analysis methods. TTT analyses and visualises basic statistics, such as read proportion per taxon, as well as more sophisticated visualisations, such as interactive Krona charts for taxonomic data exploration. Various ecological analyses can be produced directly, including alpha or beta diversity estimates, and rarefaction analysis ordination plots. Metabarcoding data can be converted into formats required for traditional, taxonomy-based analyses performed by regulatory bioassessment programs. In addition, TTT is able to produce html-based interactive graphics that can be analysed in any web browser. The software comes with a manual and tutorial, is free and publicly available through GitHub (https://github.com/TillMacher/TaxonTableTools) or the Python package index (https://pypi.org/project/taxontabletools/).

中文翻译：

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TaxonTableTools：一个全面的、独立于平台的图形用户界面软件，用于探索和可视化 DNA 元条形码数据

DNA 元条形码越来越多地用作评估研究和环境管理中的生物多样性的工具。存在强大的分析软件来处理原始数据。然而，对于生物信息学专业知识有限的最终用户来说，将序列读取数据翻译成生物信息和下游分析可能很困难。因此，越来越需要易于使用的图形用户界面 (GUI) 软件来分析和可视化 DNA 元条形码数据。在这里，我们展示了 TaxonTableTools (TTT)，这是一种新的独立于平台的 GUI，旨在通过提供简单、可重复的分析和可视化工作流程来填补这一空白。在其基础上，TTT 使用“TaXon 表”，这是一种可以在 TTT 内从两个输入文件轻松生成的数据格式：使用各种已发布的元条形码管道获得的读取表和分类表。TTT 分析和可视化模块包括维恩图，用于比较重复、样本或分析方法之间的分类重叠。TTT 分析和可视化基本统计数据，例如每个分类单元的读取比例，以及更复杂的可视化，例如用于分类数据探索的交互式克朗图表。可以直接生成各种生态分析，包括 alpha 或 beta 多样性估计以及稀疏分析排序图。Metabarcoding 数据可以转换为监管生物评估程序执行的基于分类的传统分析所需的格式。此外，TTT 能够生成基于 html 的交互式图形，可以在任何 Web 浏览器中进行分析。