nextflu

nextflu provides near-real-time tracking and analysis of influenza virus evolution and frequency dynamics to support surveillance and vaccine strain assessment.

Key Features:

• Phylogenetic Analysis: Constructs and visualizes phylogenetic trees from recent influenza virus sequence data annotated with viral genotypes at specific sites, sampling locations, and predictive statistics.
• Data Integration and Visualization: Integrates mutation patterns, genotype distributions, and clade frequency trajectories over time to characterize evolutionary trajectories of influenza viruses.
• Predictive Analytics: Incorporates derived statistics known to predict future virus dynamics to inform analyses of clade emergence and frequency changes.
• Open-source Codebase: Implemented using Python and JavaScript as an open-source computational platform.

Scientific Applications:

• Evolutionary Surveillance: Monitoring rapid evolution of seasonal influenza viruses by tracking mutations, genotypes, and clade frequencies.
• Epidemiological Analysis: Supporting studies of influenza spread and adaptation through integrated sequence and metadata analyses.
• Vaccine Strain Assessment: Providing predictive analyses to anticipate future virus dynamics that can guide vaccine formulation updates and public health interventions.

Methodology:

Constructs phylogenetic trees from up-to-date sequence data; annotates trees with genotypes, sampling locations, and predictive statistics; and calculates mutation, genotype, and clade frequency trajectories.