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Fast and accurate metagenotyping of the human gut microbiome with GT-Pro.

Nature biotechnology - 1 Apr 2022

Shi Zhou Jason, Dimitrov Boris, Zhao Chunyu, Nayfach Stephen, Pollard Katherine S

Abstract excerpt

Single nucleotide polymorphisms (SNPs) in metagenomics are used to quantify population structure, track strains and identify genetic determinants of microbial phenotypes. However, existing alignment-based approaches for metagenomic SNP detection require high-performance computing and enough read coverage to distinguish SNPs from sequencing errors. To address these issues, we developed the GenoTyper for...

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PMID: 34949778
DOI: 10.1038/s41587-021-01102-3

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