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Imelfort M, Parks D, Woodcroft BJ, Dennis P, Hugenholtz P, Tyson GW.2014. GroopM: An automated tool for the recovery of population genomes from related metagenomes. PeerJ PrePrints2:e409v1https://doi.org/10.7287/peerj.preprints.409v1
Metagenomic binning methods that leverage differential population abundances in microbial communities (differential coverage) are emerging as a complementary approach to conventional composition-based binning. Here we introduce GroopM, an automated binning tool that primarily uses differential coverage to obtain high fidelity population genomes from related metagenomes. We demonstrate the effectiveness of GroopM using synthetic and real-world metagenomes, and show that GroopM produces results comparable with more time consuming, labor-intensive methods.
The Supplementary materials file contains all supplementary methods, notes, figures, and tables referenced in the main text.