Binny: an automated binning algorithm to recover high-quality genomes from complex metagenomic datasets.

ABSTRACT: The reconstruction of genomes is a critical step in genome-resolved metagenomics and for multi-omic data integration from microbial communities. Here, we present binny, a binning tool that produces high-quality metagenome-assembled genomes (MAG) from both contiguous and highly fragmented genomes. Based on established metrics, binny outperforms or is highly competitive with commonly used and state-of-the-art binning methods and finds unique genomes that could not be detected by other methods. binny uses k-mer-composition and coverage by metagenomic reads for iterative, nonlinear dimension reduction of genomic signatures as well as subsequent automated contig clustering with cluster assessment using lineage-specific marker gene sets. When compared with seven widely used binning algorithms, b

SUBMITTER: Hickl O 

PROVIDER: S-EPMC9677464 | biostudies-literature | 2022 Nov

REPOSITORIES: biostudies-literature