emmahodcroft Goto Github PK

artic-live

Nextstrain data, pipelines, and visualizations for novel pathogen outbreak as part of ARTIC-network live workshop

asmngs20

ASMNGS20 - 2020 Conference Details

augur

Pipeline components for real-time virus analysis

augurlinos

A collection of modules for molecular epidemiology

british-covid19-cluster

Data relating to publication of a case report on the UK/France/Spain COVID-19 cluster in early 2020

cluster-picker-and-cluster-matcher

For all your cluster needs

cov

Coronavirus builds

covid-19_testing

An open letter on increased testing for COVID-19 in Switzerland

dengue-antigenic-dynamics

Dengue antigenic variation and evolutionary dynamics

echo30

emmahodcroft.github.io

GitHub Page

enterovirus

To temporarily display enterovirus builds

enterovirus_genome

Nextstrain run for full-genome enterovirus

enterovirus_vp1

Enterovirus D68 VP1 Nextstrain Analysis

ev_d68_enpen2022

Enterovirus-D68 phylogenetic analyses code - actively maintained

gc

grand challenges outbreak virus

hello-world

GitHub tutorial

intros-ch-alphadelta

Code used for the phylogenetic analysis of importations of Alpha and Delta SC2 into Switzerland

ncov_2021

ncov_cluster

Nextstrain build for novel coronavirus SARS-CoV-2

rvf

sarscov2-tutorial

Template & tutorial for SARS-CoV-2 analysis

slate

Slate is a Jekyll theme for GitHub Pages

south-usa-sarscov2

Runs from Southern USA States of SARSCoV2 data

static

Static content about / docs / tutorial / blog posts

svvc

simple viral variant caller

tb

TB runs with nextstrain-augur

tb-example

Trial TB data for Nextstrain tutorials

tbtmr2

Global TB run

treetime

Maximum likelihood inference of time stamped phylogenies and ancestral reconstruction