As a staff scientist in the Bedford Lab, my work includes independent research, software development, and educational outreach and mentorship. I study the evolution of seasonal influenza viruses, develop computational models to predict the composition of future influenza populations, and contribute to reports to the World Health Organization’s vaccine composition meetings. I am also a core developer of Nextstrain’s real-time pathogen surveillance tools including the Augur bioinformatics toolkit and the SARS-CoV-2 genomic epidemiology workflow. This work builds on my previous professional roles as a bioinformatics specialist and software developer and my previous educational experiences including master’s degrees in computer science and biology.
Joint visualization of seasonal influenza serology and phylogeny to inform vaccine composition
The evolving SARS-CoV-2 epidemic in Africa: Insights from rapidly expanding genomic surveillance
Rapid and parallel adaptive mutations in spike S1 drive clade success in SARS-CoV-2
Limited predictability of amino acid substitutions in seasonal influenza viruses
Augur: a bioinformatics toolkit for phylogenetic analyses of human pathogens
Cryptic transmission of SARS-CoV-2 in Washington State
dms-view: Interactive visualization tool for deep mutational scanning data
Seasonal influenza circulation patterns and projections for September 2019 to September 2020
Nextstrain: real-time tracking of pathogen evolution
augur - Pipeline components for real-time phylodynamic analysis
fauna - RethinkDB database to support real-time virus analysis
ncov - Nextstrain build for novel coronavirus SARS-CoV-2
nextflu - Real-time tracking of influenza evolution
janus - Build and deploy Nextstrain
Predicting seasonal influenza evolution
Deep mutational scanning helps predict evolutionary fates of human H3N2 influenza variants