Accurate Reconstruction of Microbial Strains from Metagenomic Sequencing Using Representative Reference Genomes. - Zhemin Zhou; Nina Luhmann; Nabil-Fareed Alikhan; Christopher Quince; Mark Achtman (RECOMB, 2018)

HierCC: a multi-level clustering scheme for population assignments based on core genome MLST. - Zhemin Zhou; Jane Charlesworth; Mark Achtman (Bioinform., 2021)