metabinner

name	metabinner
description	MetaBinner — stand-alone ensemble contig binning using multi-feature k-means components and two-stage single-copy-gene ensemble integration. Use when: (1) Running MetaBinner as an ensemble-style single tool, (2) Comparing to MetaWRAP/DAS Tool/COMEBin, (3) Diversifying bin sets before further refinement. Upstream: https://github.com/ziyewang/MetaBinner. For recommended multi-assembly refinement still prefer basalt ★.
license	MIT
category	analysis-tools
tags	["binning","MetaBinner","ensemble","SCG"]
upstream	https://github.com/ziyewang/MetaBinner
stage	binning

MetaBinner

Upstream: ziyewang/MetaBinner

Citation

Wang, Z. et al. MetaBinner: a high-performance and stand-alone ensemble binning method to recover individual genomes from complex microbial communities. Genome Biol. 24, 1 (2023). https://doi.org/10.1186/s13059-022-02832-6

See also docs/references.md.

Analytical thinking

MetaBinner is an internal ensemble: multiple k-means component binning results (multi-feature) integrated with SCG-aware two-stage selection — a stand-alone alternative to piping MetaBAT/MaxBin into MetaWRAP/DAS Tool.

Still feed outputs through CheckM2; for related multi-assembly catalogues prefer basalt ★. Complements comebin from the same group.

How to run

# follow upstream scripts — typically contigs + coverage tables
MetaBinner ...  # verify flags in README

Related skills

comebin · metawrap · dastool · basalt · checkm2 · tool-selection