Evaluating Reference-Independent Pipelines for the Detection of Spreading Organisms in Metagenomic Datasets
Nikolay Popov, Vera Panova, Maria Molchanova, S.A. Gurov, Alexander N. Lukashev, E.N. Ilina, Alexander I. Manolov
This study evaluates four reference-independent pipelines for detecting spreading organisms in metagenomic datasets, finding the coverage-based method most reliable for sensitive pathogen discovery.
bioRxiv · May 6, 2026 · PreprintBioinformatics