Search — CLI documentation

CLI version: stable

(Click here to return to the main nextstrain docs)

Table of Contents

Introduction
Installation
Commands
Nextstrain CLI and AWS

CLI

»
Search

Revision 5df8de0a.

Hadfield et al., Nextstrain: real-time tracking of pathogen evolution , Bioinformatics (2018)

Nextstrain is built by

Trevor Bedford ,

Richard Neher ,

James Hadfield ,

Emma Hodcroft ,

Thomas Sibley ,

John Huddleston ,

Ivan Aksamentov ,

Kairsten Fay ,

Moira Zuber ,

Misja Ilcisin ,

Cassia Wagner ,

Louise Moncla ,

Allison Black ,

Miguel Parades ,

Barney Potter ,

Pavel Sagulenko ,

Charlton Callender

All source code for Nextstrain is freely available under the terms of an open-source license, typically AGPL-3.0 or MIT. Refer to specific projects for details. Screenshots may be used under a CC-BY-4.0 license and attribution to nextstrain.org must be provided.

This work is made possible by the open sharing of genetic data by research groups from all over the world. We gratefully acknowledge their contributions. Special thanks to Kristian Andersen, Josh Batson, David Blazes, Jesse Bloom, Peter Bogner, Anderson Brito, Matt Cotten, Ana Crisan, Tulio de Oliveira, Gytis Dudas, Vivien Dugan, Karl Erlandson, Nuno Faria, Jennifer Gardy, Nate Grubaugh, Becky Kondor, Dylan George, Ian Goodfellow, Betz Halloran, Christian Happi, Jeff Joy, Paul Kellam, Philippe Lemey, Nick Loman, Duncan MacCannell, Erick Matsen, Sebastian Maurer-Stroh, Placide Mbala, Danny Park, Oliver Pybus, Andrew Rambaut, Colin Russell, Pardis Sabeti, Katherine Siddle, Kristof Theys, Dave Wentworth, Shirlee Wohl and Cecile Viboud for comments, suggestions and data sharing.

© Copyright 2018–2021, Trevor Bedford and Richard Neher

Revision 5df8de0a.

Built with Sphinx using our customised version of a base theme provided by Read the Docs.

Read the Docs v: stable

Versions: latest; stable

Downloads

On Read the Docs: Project Home; Builds