Identifying SARS-CoV-2 regional introductions and transmission clusters in real time.

ABSTRACT: The unprecedented severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) global sequencing effort has suffered from an analytical bottleneck. Many existing methods for phylogenetic analysis are designed for sparse, static datasets and are too computationally expensive to apply to densely sampled, rapidly expanding datasets when results are needed immediately to inform public health action. For example, public health is often concerned with identifying clusters of closely related samples, but the sheer scale of the data prevents manual inspection and the current computational models are often too expensive in time and resources. Even when results are available, intuitive data exploration tools are of critical importance to effective public health interpretation and action. To help add

SUBMITTER: McBroome J 

PROVIDER: S-EPMC9214145 | biostudies-literature | 2022

REPOSITORIES: biostudies-literature