Maast: genotyping thousands of microbial strains efficiently.
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ABSTRACT:
SUBMITTER: Shi ZJ
PROVIDER: S-EPMC10416524 | biostudies-literature | 2023 Aug
REPOSITORIES: biostudies-literature
Publications
Maast: genotyping thousands of microbial strains efficiently.
Shi Zhou Jason ZJ Nayfach Stephen S Pollard Katherine S KS
Genome biology 20230810 1
Existing single nucleotide polymorphism (SNP) genotyping algorithms do not scale for species with thousands of sequenced strains, nor do they account for conspecific redundancy. Here we present a bioinformatics tool, Maast, which empowers population genetic meta-analysis of microbes at an unrivaled scale. Maast implements a novel algorithm to heuristically identify a minimal set of diverse conspecific genomes, then constructs a reliable SNP panel for each species, and enables rapid and accurate ...[more]
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