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bioRxiv · 10.1101/233544

MAGpy: a reproducible pipeline for the downstream analysis of metagenome-assembled genomes (MAGs)

Stewart, R.·Auffret, M.·Snelling, T.·Roehe, R.·Watson, M.
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Abstract

Recent advances in bioinformatics have enabled the rapid assembly of genomes from metagenomes (MAGs), and there is a need for reproducible pipelines that can annotate and characterise thousands of genomes simultaneously. Here we present MAGpy, a Snakemake pipeline that takes FASTA input and compares MAGs to several public databases, checks quality, assigns a taxonomy and draws a phylogenetic tree.

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Stewart, R., Auffret, M., Snelling, T., Roehe, R., Watson, M.. 2017-12-13. MAGpy: a reproducible pipeline for the downstream analysis of metagenome-assembled genomes (MAGs). https://doi.org/10.1101/233544

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