Identifying species-specific k-mers for fast and accurate metagenotyping with Maast and GT-Pro

Genotyping single-nucleotide polymorphisms (SNPs) in microbiomes enables strain-level quantification. In this protocol, we describe a computational pipeline that performs fast and accurate SNP genotyping using metagenomic data. We first demonstrate how to use Maast to catalog SNPs from microbial gen...

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Detalles Bibliográficos
Autores principales: Shi, Zhou Jason, Nayfach, Stephen, Pollard, Katherine S.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2023
Materias:
Protocol
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10037184/
https://www.ncbi.nlm.nih.gov/pubmed/36856771
http://dx.doi.org/10.1016/j.xpro.2022.101964

Internet

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10037184/
https://www.ncbi.nlm.nih.gov/pubmed/36856771
http://dx.doi.org/10.1016/j.xpro.2022.101964

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