Bioinformatics· 2018Q1
Nextstrain: real-time tracking of pathogen evolution
- 3,452citations
- Q1SCImago
- 2018year
Short summary
Nextstrain provides a real-time, integrated platform for tracking viral pathogen evolution and spread, combining genomic data with geographic and serological information.
AI-generated from the title and abstract; the full text is not read.
Key points
- Nextstrain integrates viral genome databases, bioinformatics pipelines, and interactive visualizations.
- The platform provides a real-time view of pathogen evolution and spread.
- It combines sequence data with geographic, serological, and host species information.
- All code is available on GitHub, and the web application is accessible online.
AI-generated from the title and abstract; the full text is not read.
Abstract
Summary: 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. Availability and implementation: All code (predominantly JavaScript and Python) is freely available from github.com/nextstrain and the web-application is available at nextstrain.org.
The authors' abstract, as published at the source. Bioinformatics, 2018 · DOI ↗
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Field: Public Health, Environmental and Occupational Health
Public Health, Environmental and Occupational HealthMedicine