The Roslin Institute and R(D)SVS, University of Edinburgh, Easter Bush, UK.
Scotland's Rural College, Easter Bush, UK.
Bioinformatics. 2019 Jun 1;35(12):2150-2152. doi: 10.1093/bioinformatics/bty905.
Metagenomics is a powerful tool for assaying the DNA from every genome present in an environment. Recent advances in bioinformatics have enabled the rapid assembly of near-complete metagenome-assembled genomes (MAGs), and there is a need for reproducible pipelines that can annotate and characterize thousands of genomes simultaneously, to enable identification and functional characterization.
Here we present MAGpy, a scalable and reproducible pipeline that takes multiple genome assemblies as FASTA and compares them to several public databases, checks quality, suggests a taxonomy and draws a phylogenetic tree.
MAGpy is available on github: https://github.com/WatsonLab/MAGpy.
Supplementary data are available at Bioinformatics online.
宏基因组学是一种强大的工具，可用于分析环境中存在的每个基因组的 DNA。生物信息学的最新进展使得近乎完整的宏基因组组装基因组 (MAG) 的快速组装成为可能，并且需要能够同时注释和表征数千个基因组的可重复管道，以实现鉴定和功能表征。
在这里，我们展示了 MAGpy，这是一个可扩展且可重复的管道，它可以接受多个基因组组装作为 FASTA 并将它们与几个公共数据库进行比较，检查质量，建议分类群并绘制系统发育树。
MAGpy 可在 github 上获得：https://github.com/WatsonLab/MAGpy。
补充数据可在 Bioinformatics 在线获得。
