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MaxBin 2.0: an automated binning algorithm to recover genomes from multiple metagenomic datasets
Open accessAbstract
Summary: The recovery of genomes from metagenomic datasets is a critical step to defining the functional roles of the underlying uncultivated populations. We previously developed MaxBin, an automated binning approach for high-throughput recovery of microbial genomes from metagenomes. Here we present an expanded binning algorithm, MaxBin 2.0, which recovers genomes from co-assembly of a collection of metagenomic datasets. Tests on simulated datasets revealed that MaxBin 2.0 is highly accurate in recovering individual genomes, and the application of MaxBin 2.0 to several metagenomes from environmental samples demonstrated that it could achieve two complementary goals: recovering more bacterial genomes compared to binning a single sample as well as comparing the microbial community composition between different sampling environments. Availability and implementation: MaxBin 2.0 is freely available at http://sourceforge.net/projects/maxbin/ under BSD license. Contact: ywwei@lbl.gov Supplementary information: Supplementary data are available at Bioinformatics online.
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Research works printed but not linked: 14
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A unified catalog of 204,938 reference genomes from the human gut microbiome
Almeida, A., Nayfach, S., Boland, M., Strozzi, F., Beracochea, M., Shi, Z. J., Pollard, K. S., Sakharova, E., Parks, D. H., Hugenholtz, P., et al. (2021) · Nature Biotechnology · doi:10.1038/s41587-020-0603-3 · Cited by 1,367
Metadata
- Authors
- Wu, Y.-W., Simmons, B. A., & Singer, S. W.
- Venue
- Bioinformatics
- Publisher
- Oxford University Press (OUP)
- Published
- 2015-10-29
- Volume
- 32
- Issue
- 4
- Pages
- 605-607
- ISSN
- 1367-4803 (ISSN-L)
- 1367-4811
- OpenAlex
- W1878521557
- Cited by
- 2,793
- References
- 0
- FWCI
- 13.77
- Type
- journal article
- Language
- en
- Open access
- bronze
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