Article

Benchmarking strain-level profiling of <i>Escherichia coli</i> in short-read gut metagenomes

2026-05-19

Abstract excerpt

2. Metagenomes offer the potential to characterise Escherichia coli strain-level diversity within the human gut microbiome, informing our understanding of colonisation diversity and the genetic features distinguishing infection from carriage. Among numerous reference-based tools for short-read metagenomic strain-level profiling, the best approach remains unclear. Here, we benchmarked six published tools—PanTax, P...

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Literature Corpus work: 12840ac7-2930-5e6c-97dd-8fc1c010fc94
DOI: 10.64898/2026.05.19.726160

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