nextflu
Real-time tracking of influenza evolution
Updated 8 Sep 2023 by joverlee521
id3c
Data logistics system enabling real-time pathogen surveillance. Built for the Seattle Flu Study.
Updated 1 Sep 2023 by davereinhart
ncov-wa-phylodynamics
Viral genomes reveal patterns of the SARS-CoV-2 outbreak in Washington State
Updated 24 Aug 2023 by trvrb
siv-cst
Modern-day SIV viral diversity generated by extensive recombination and cross-species transmission
Updated 24 Aug 2023 by trvrb
mumps-wa-phylodynamics
Repeated introductions and intensive community transmission fueled a mumps virus outbreak in Washington State
Updated 24 Aug 2023 by trvrb
mers-structure
MERS-CoV spillover at the camel-human interface
Updated 24 Aug 2023 by trvrb
mumps-seq
Protocols for sequencing mumps viruses
Updated 24 Aug 2023 by trvrb
sismid
Pathogen evolution, selection and immunity
Updated 21 Jul 2023 by sarahCobey
ncov-cryptic-transmission
Cryptic transmission of SARS-CoV-2 in Washington State
Updated 22 Jun 2023 by trvrb
flu-forecasting
Integrating genotypes and phenotypes improves long-term forecasts of seasonal influenza A/H3N2 evolution
Updated 14 Apr 2023 by huddlej
seasonal-cov-adaptive-evolution
Nextstrain builds for seasonal coronavirus
Updated 2 Aug 2022 by kkistler
mitii
Pathogen evolution, selection and immunity
Updated 13 Dec 2021 by trvrb
phylodynamics-lecture
Lecture on viral phylodynamics
Updated 28 Oct 2021 by trvrb
ncov-wa-d614g
Updated 30 Mar 2021 by cassiawag
zika-usvi
Evolutionary analysis of USVI Zika epidemic
Updated 24 Jan 2021 by alliblk
gs541-phylodynamics
Lectures and materials for GS541 Introduction to Computational Molecular Biology
Updated 29 May 2020 by trvrb
ncov-phylodynamics
Phylodynamic estimation of nCoV incidence and prevalence
Updated 14 Feb 2020 by trvrb
genomic-horizon
Temporal horizons of genomic epidemiology
Updated 30 Dec 2019 by trvrb
h5n1-cambodia
Within-host diversity in H5N1-infected humans and poultry in Cambodia
Updated 26 Nov 2019 by lmoncla
h3n2-reassortment
Evolution and rapid spread of a reassortant A(H3N2) virus that predominated the 2017-2018 influenza season
Updated 3 Oct 2019 by barneypotter24
zika-colombia
Genetic analysis of the Zika epidemic in Colombia
Updated 1 Sep 2019 by alliblk
dengue-antigenic-dynamics
Dengue antigenic variation and evolutionary dynamics
Updated 29 Aug 2019 by trvrb
zika-seq
Pipelines to do MinION sequencing of Zika virus
Updated 25 Jul 2019 by barneypotter24
global-migration
Analysis of global migration patterns of seasonal influenza viruses
Updated 24 Jul 2019 by trvrb
roka
Evolutionary and epidemiological analysis of Roka HIV outbreak
Updated 8 Aug 2018 by alliblk
unsampled
Estimating unsampled viral diversity
Updated 23 Aug 2017 by trvrb
yellow-fever
Evolutionary dynamics of yellow fever virus
Updated 17 Nov 2016 by ebaberga
chikv
Evolutionary dynamics of chikungunya virus
Updated 2 Sep 2016 by trvrb
medium-data
Talk on data and visualization
Updated 1 Jul 2016 by trvrb
sctrace
Simulating migration patterns using charged particles
Updated 26 Oct 2015 by trvrb
flutrace
Visualizing influenza global circulation patterns
Updated 25 Oct 2015 by trvrb
PACT
Posterior Analysis of Coalescent Trees
Updated 6 Aug 2015 by trvrb
coaltrace
Simulating genealogies using charged particles
Updated 20 Apr 2015 by trvrb
antigen
Simulating virus evolution and epidemiology
Updated 6 Mar 2015 by trvrb
haplotypes
Visualizing evolution as a network of shared mutations
Updated 25 Jul 2014 by trvrb
ancestry
Tracing coalescent histories
Updated 8 May 2014 by trvrb
stem
Picking influenza stem strains
Updated 21 Dec 2013 by trvrb
dynamics-practical
Inferring spatiotemporal dynamics of the H1N1 influenza pandemic from sequence data
Updated 25 Oct 2013 by trvrb
divergence
Illustration of Darwin's Principle of Divergence
Updated 21 Oct 2013 by trvrb