Nextstrain

Repositories

• ncov

  Nextstrain build for novel coronavirus SARS-CoV-2
  Python MIT 242 1,009 21 18 Updated Apr 13, 2020

• cli

  The Nextstrain command-line tool, providing access to Nextstrain components in a local environment with a minimum of fuss.
  Python MIT 10 10 24 5 Updated Apr 13, 2020

• translations

  Repo for translations of nextstrain website and COVID-19 weekly situation reports.
  MIT 7 1 4 1 Updated Apr 13, 2020

• augur

  Pipeline components for real-time phylodynamic analysis
  Python AGPL-3.0 66 120 47 (2 issues need help) 24 Updated Apr 13, 2020

• nextstrain.org

  The Nextstrain website
  JavaScript 17 42 16 (2 issues need help) 4 Updated Apr 13, 2020

• narratives

  Narrative markdown files accessed via nextstrain.org/narratives/x
  4 1 0 0 Updated Apr 13, 2020

• auspice

  Web app for visualizing pathogen evolution
  JavaScript AGPL-3.0 89 180 99 (3 issues need help) 13 Updated Apr 12, 2020

• cov

  Coronavirus builds
  Python 1 6 0 0 Updated Apr 11, 2020

• mumps

  Nextstrain build for mumps virus
  Python 0 0 0 0 Updated Apr 9, 2020

• conda

  Nextstrain environment for the Conda package manager
  Shell 0 0 0 0 Updated Apr 7, 2020

• fauna

  RethinkDB database to support real-time virus analysis
  Python AGPL-3.0 8 23 10 2 Updated Apr 6, 2020

• docker-base

  Docker image build for nextstrain/base
  Dockerfile 0 6 0 3 Updated Apr 6, 2020

• janus Archived

  Build and deploy Nextstrain
  Python AGPL-3.0 2 6 0 0 Updated Apr 6, 2020

• .github
  0 1 0 0 Updated Mar 31, 2020

• seasonal-flu

  Scripts. config, and snakefiles for seasonal-flu nextstrain builds
  Python 5 15 4 1 Updated Mar 27, 2020

• seasonal-cov

  Nextstrain builds for seasonal coronavirus
  Python 0 3 0 0 Updated Mar 27, 2020

• community-narratives-test

  Testing of community narratives on nextstrain.org
  0 0 0 0 Updated Jan 28, 2020

• enterovirus_d68

  Enterovirus-D68 phylogenetic analyses code - actively maintained
  Python 0 0 0 0 Updated Jan 23, 2020

• ebola

  Nextstrain build for Ebola virus
  Python 3 2 0 0 Updated Dec 14, 2019

• zika

  Nextstrain build for Zika virus
  Python 0 2 4 0 Updated Dec 14, 2019

• avian-flu

  Nextstrain build for avian influenza viruses
  Python 1 2 0 1 Updated Dec 13, 2019

• zika-tutorial

  Data and scripts for Zika virus tutorial
  Python 6 3 0 0 Updated Dec 12, 2019

• dengue

  Nextstrain build for dengue virus
  Python 0 2 0 0 Updated Dec 11, 2019

• tb

  Nextstrain build for tuberculosis
  Python 0 1 0 0 Updated Dec 11, 2019

• measles

  Nextstrain build for measles virus
  Python 0 0 0 0 Updated Dec 11, 2019

• WNV

  Nextstrain build for WNV
  Python 1 0 1 0 Updated Nov 18, 2019

• community-search
  JavaScript 0 0 0 0 Updated Oct 2, 2019

• mers

  Nextstrain build for MERS-CoV
  Python 0 0 0 0 Updated Aug 5, 2019

• augurlinos

  A collection of modules for molecular epidemiology
  Python 1 1 2 0 Updated Jul 24, 2019

• zika-tutorial-nextflow

  Nextflow based pipeline for Zika tutorial
  Nextflow 0 0 0 0 Updated Jul 9, 2019