jameshadfield
programmer / postdoc at the Bedford lab
Fred Hutchinson Cancer Research CenterSeattle, USA
Pinned Repositories
ebola-nord-kivu
mostly unpublished data relating to the 2018-20 Nord Kivu DRC ebola outbreak
minorVariants
analysis of minor allele resistance (variants) using pileups across known positions
phandango
an interactive viewer for populations of bacterial genomes linked by a phylogeny
phandangoExampleData
The data underlying the examples on phandango.net
phylocanvas
Phylogenetic tree visualisation for the web.
setup
following https://github.com/trvrb/setup
understandingGubbins
Helper scripts to parse gubbins and BratNextGen output in conjunction with iCANDY
veme2019
Nextstrain workshop for VEME 2019, Hong Kong
augur
Pipeline components for real-time phylodynamic analysis
auspice
Web app for visualizing pathogen evolution
jameshadfield's Repositories
jameshadfield/phandango
an interactive viewer for populations of bacterial genomes linked by a phylogeny
jameshadfield/phandangoExampleData
The data underlying the examples on phandango.net
jameshadfield/understandingGubbins
Helper scripts to parse gubbins and BratNextGen output in conjunction with iCANDY
jameshadfield/ebola-nord-kivu
mostly unpublished data relating to the 2018-20 Nord Kivu DRC ebola outbreak
jameshadfield/minorVariants
analysis of minor allele resistance (variants) using pileups across known positions
jameshadfield/phylocanvas
Phylogenetic tree visualisation for the web.
jameshadfield/setup
following https://github.com/trvrb/setup
jameshadfield/veme2019
Nextstrain workshop for VEME 2019, Hong Kong
jameshadfield/artic-rampart-ebov
testing purposes only
jameshadfield/basel-flu
jameshadfield/bioconda-recipes
Conda recipes for the bioconda channel.
jameshadfield/compare_nextstrain_tmrcas
jameshadfield/covariants
Real-time updates and information about key SARS-CoV-2 variants, plus the scripts that generate this information.
jameshadfield/d3
Bring data to life with SVG, Canvas and HTML. :bar_chart::chart_with_upwards_trend::tada:
jameshadfield/HCoV-19-Genomics-Nextstrain
Repo for local NextStrain build
jameshadfield/JScandy
JScandy is dead. Long live phandango!
jameshadfield/mpox
jameshadfield/nextstrain-community-build
jameshadfield/nextstrain-iframe
jameshadfield/pan-genome-t-SNE
t-SNE dimension reduction of bacterial pan genome data
jameshadfield/paninisim
simulated genomes to test panini
jameshadfield/rampart
Read Assignment, Mapping, and Phylogenetic Analysis in Real Time
jameshadfield/rsv
jameshadfield/scratch