Clinical and Molecular Determinants of ESBL Transmission in the Community (MERLIN)
Samples were prepared using the QIAseq FX DNA library kit. Isolates underwent sequencing on an Illumina Novaseq X instrument at the University of Michigan's Advanced Genomics Core. Raw sequencing data underwent quality control using QCD (https://github.com/Snitkin-Lab-Umich/QCD).