Quantifying microbiome species and composition from metagenomic assays is often challenging due to its time-consuming nature and computational complexity. In Bioinformatics, k-mer-based approaches were long established to expedite the analysis of large sequencing data and are now widely used to annotate metagenomic data. We make use of k-mer counting techniques for efficient and accurate compositional analysis of microbiota from whole metagenome sequencing. Mibianto solves this problem by operating directly on read files, without manual preprocessing or complete data exchange. It handles diverse sequencing platforms, including short single-end, paired-end, and long read technologies. Our sketch-based workflow significantly reduces the data volume transferred from the user to the server (up to 99.59% size reduction) to subsequently perform taxonomic profiling with enhanced efficiency and privacy. Mibianto offers functionality beyond k-mer quantification; it supports advanced community composition estimation, including diversity, ordination, and differential abundance analysis. Our tool aids in the standardization of computational workflows, thus supporting reproducibility of scientific sequencing studies. It is adaptable to small- and large-scale experimental designs and offers a user-friendly interface, thus making it an invaluable tool for both clinical and research-oriented metagenomic studies. Mibianto is freely available without the need for a login at: https://www.ccb.uni-saarland.de/mibianto.

中文翻译：

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Mibianto：通过基于 k-mer 的宏基因组学进行超高效在线微生物组分析

由于其耗时和计算复杂性，通过宏基因组测定量化微生物组物种和组成通常具有挑战性。在生物信息学中，基于 k-mer 的方法很早就建立起来，以加快大型测序数据的分析，现在广泛用于注释宏基因组数据。我们利用 k-mer 计数技术对全宏基因组测序中的微生物群进行高效、准确的组成分析。 Mibianto通过直接对读取的文件进行操作来解决这个问题，无需手动预处理或完成数据交换。它可处理多种测序平台，包括短单端、双端和长读长技术。我们基于草图的工作流程显着减少了从用户传输到服务器的数据量（大小减少高达 99.59%），以便随后执行分类分析，从而提高效率和隐私。 Mibianto 提供的功能超出了 k-mer 定量；它支持先进的群落组成估计，包括多样性、排序和差异丰度分析。我们的工具有助于计算工作流程的标准化，从而支持科学测序研究的可重复性。它适用于小型和大规​​模的实验设计，并提供用户友好的界面，从而使其成为临床和研究型宏基因组研究的宝贵工具。 Mibianto 无需登录即可免费使用：https://www.ccb.uni-saarland.de/mibianto。