Nextstrain: real-time tracking of pathogen evolution

Hadfield, J; Megill, C; Bell, SM; Huddleston, J; Potter, B; Callender, C; Sagulenko, P; Bedford, T; Neher, RA

doi:10.1093/bioinformatics/bty407

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Nextstrain: real-time tracking of pathogen evolution

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Sagulenko, P
Research Group Evolutionary Dynamics and Biophysics, Max Planck Institute for Developmental Biology, Max Planck Society;

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Neher, RA
Research Group Evolutionary Dynamics and Biophysics, Max Planck Institute for Developmental Biology, Max Planck Society;

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Citation

Hadfield, J., Megill, C., Bell, S., Huddleston, J., Potter, B., Callender, C., et al. (2018). Nextstrain: real-time tracking of pathogen evolution. Bioinformatics, 34(23), 4121-4123. doi:10.1093/bioinformatics/bty407.

Cite as: https://hdl.handle.net/21.11116/0000-000A-6CD3-F

Abstract

Understanding the spread and evolution of pathogens is important for effective public health measures and surveillance. Nextstrain consists of a database of viral genomes, a bioinformatics pipeline for phylodynamics analysis, and an interactive visualization platform. Together these present a real-time view into the evolution and spread of a range of viral pathogens of high public health importance. The visualization integrates sequence data with other data types such as geographic information, serology, or host species. Nextstrain compiles our current understanding into a single accessible location, open to health professionals, epidemiologists, virologists and the public alike.