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Learning the fitness dynamics of pathogens from phylogenies

Sequence data For each pathogen, we compiled a dataset to investigate the changes in the population composition. For SARS-CoV-2 and H3N2, we extracted the datasets from the publicly available NextStrain37 time-resolved phylogenies, accessed on 14 April 2023. These datasets are sub-samples from all publicly available sequences in GISAID, to represent the diversity as much as […]