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CheckM2: a rapid, scalable and accurate tool for assessing microbial genome quality using machine learning.
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The IMG/M data management and analysis system v.7: content updates and new features.
Nucleic Acids Res. 2023 Jan 6;51(D1):D723-D732. doi: 10.1093/nar/gkac976.
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1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life.
Nat Biotechnol. 2017 Jul;35(7):676-683. doi: 10.1038/nbt.3886. Epub 2017 Jun 12.
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The standard operating procedure of the DOE-JGI Microbial Genome Annotation Pipeline (MGAP v.4).
Stand Genomic Sci. 2015 Oct 26;10:86. doi: 10.1186/s40793-015-0077-y. eCollection 2015.
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High-quality draft assemblies of mammalian genomes from massively parallel sequence data.
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Using the Velvet de novo assembler for short-read sequencing technologies.
Curr Protoc Bioinformatics. 2010 Sep;Chapter 11:Unit 11.5. doi: 10.1002/0471250953.bi1105s31.
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VFDB: a reference database for bacterial virulence factors.
Nucleic Acids Res. 2005 Jan 1;33(Database issue):D325-8. doi: 10.1093/nar/gki008.

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