Department of Microbiology and Molecular Biology, Brigham Young University, Provo, UT, 84602, USA.
F1000Res. 2022 Apr 28;11:265. doi: 10.12688/f1000research.108835.2. eCollection 2022.
Generating high-quality genome assemblies of complex microbial populations from shotgun metagenomics data is often a manually intensive task involving many computational steps. SnakeWRAP is a novel tool, implemented in the Snakemake workflow language, to automate multiple metaWRAP modules. Specifically, it wraps the shell scripts provided within the original metaWRAP software, within Snakemake. This approach enables high-throughput simultaneous assembly and analysis of multiple shotgun metagenomic datasets using the robust modular metaWRAP software. We expect this advancement to be of import in institutions where high-performance computing infrastructure is available, especially in the context of big data. This software tool is publicly available at https://github.com/jkrapohl/SnakeWRAP.
从鸟枪法宏基因组学数据中生成复杂微生物群体的高质量基因组组装通常是一项需要大量人工操作的任务，涉及许多计算步骤。SnakeWRAP 是一种新颖的工具，它使用 Snakemake 工作流语言来自动执行多个 metaWRAP 模块。具体来说，它将原始 metaWRAP 软件中提供的 shell 脚本封装在 Snakemake 中。这种方法使使用强大的模块化 metaWRAP 软件同时对多个鸟枪法宏基因组数据集进行高通量组装和分析成为可能。我们预计，在拥有高性能计算基础设施的机构中，这一进展将具有重要意义，尤其是在大数据的背景下。这个软件工具可在 https://github.com/jkrapohl/SnakeWRAP 上公开获取。
