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Article

Genotyping Microbial Communities with MIDAS2: From Metagenomic Reads to Allele Tables.

Current protocols - 1 Dec 2022

Zhao Chunyu, Goldman Miriam, Smith Byron J, Pollard Katherine S

Abstract excerpt

The Metagenomic Intra-Species Diversity Analysis System 2 (MIDAS2) is a scalable pipeline that identifies single nucleotide variants and gene copy number variants in metagenomes using comprehensive reference databases built from public microbial genome collections (metagenotyping). MIDAS2 is the first metagenotyping tool with functionality to control metagenomic read mapping filters and to customize the reference...

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PMID: 36469554
DOI: 10.1002/cpz1.604
PMCID: PMC9907011

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