Phylodynamic modelling of bacterial outbreaks using nanopore sequencing
Eike J. Steinig, Sebastián Duchêne, Izzard Aglua, Andrew R. Greenhill, Rebecca L. Ford, Mition Yoannes, Jan Jaworski, Jimmy Drekore, Bohu Urakoko, Harry Poka, Clive Wurr, Eri Ebos, David Nangen, Moses Laman, Laurens A. Manning, , Paul F. Horwood
This paper uses nanopore sequencing and Random Forest models to estimate transmission dynamics of MRSA outbreaks, showing sustained transmission with Re > 1.
bioRxiv · Apr 30, 2021 · PreprintBioinformatics