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Article

Genomic diversity affects the accuracy of bacterial single-nucleotide polymorphism-calling pipelines.

GigaScience - 1 Feb 2020

Bush Stephen J, Foster Dona, Eyre David W, Clark Emily L, De Maio Nicola, Shaw Liam P, Stoesser Nicole, Peto Tim E A, Crook Derrick W, Walker A Sarah

Abstract excerpt

BACKGROUND: Accurately identifying single-nucleotide polymorphisms (SNPs) from bacterial sequencing data is an essential requirement for using genomics to track transmission and predict important phenotypes such as antimicrobial resistance. However, most previous performance evaluations of SNP calling have been restricted to eukaryotic (human) data. Additionally, bacterial SNP calling requires choosing an...

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Methodology Data sources Editorial policy Privacy About Contact Helena Bioinformatics

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PMID: 32025702
DOI: 10.1093/gigascience/giaa007
PMCID: PMC7002876

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