DeepDynaForecast: Phylogenetic-informed graph deep learning for epidemic transmission dynamic prediction
Fig 5
Florida HIV-1 subtype B pol sequence phylogeny (2012–2017).
The maximum likelihood phylogeny was generated as described in Rich et al. [19] for 27, 115 partial pol sequences sampled from individuals across the state of Florida, for whom metadata were provided. County of residence, categorized according to EHE prioritization, is shown in the corresponding heatmap. Cluster status for each external branch according to MicrobeTrace [33] and dynamic prediction using the DeepDynaForecast are also shown. Branches are scaled in substitutions/site.