OxBreaker: species-agnostic pipeline for the analysis of outbreaks using nanopore sequencing
Carlos Reding, Katie M.V. Hopkins, Matthew Colpus, Nicholas D. Sanderson, Jessica Gentry, Sarah J Oakley, Mark Robin Campbell, Drosos E. Karageorgopoulos, Katie JM Jeffery, David W. Eyre, Philip Bejon, Nicole E Stoesser, Ann Sarah Walker, Bernadette Young
OxBreaker is a species-agnostic pipeline for analyzing bacterial and plasmid outbreaks using nanopore sequencing, offering high accuracy and accessibility for real-time genomic surveillance.
bioRxiv · Mar 19, 2026 · PreprintGenomics