2025-05-12

Conda runtime back in sync

The Nextstrain team

Updates to our Conda runtime were paused for a few weeks but have now resumed with version 20250512T165820Z. Use the nextstrain update conda command to update your own setup.

Blog Archives

Annual Update May 2026 (2026-05-19)
New Auspice tree visualisations (2026-03-12)
Joint response to GISAID regarding termination of SARS-CoV-2 data feeds (2026-02-24)
Norovirus resources (2026-01-14)
Tuberculosis resources (2025-11-17)
Interruption to GISAID-based SARS-CoV-2 analyses (2025-11-06)
Standardized Multiple Inputs (2025-09-29)
Mumps resources (2025-09-24)
PPX and Nextstrain (2025-08-28)
Rubella resources (2025-07-24)
Upgrade to Snakemake v9 (2025-07-17)
Introducing nextstrain run (2025-06-13)
Conda runtime back in sync (2025-05-12)
Conda runtime out-of-sync (2025-04-22)
Annual Update March 2025 (2025-03-31)
Rabies, Lassa, and Yellow Fever Virus Resources (2025-02-21)
HMPV Phylogenetic Analysis and Resources (2025-01-09)
Notable changes in Auspice (2024-12-16)
Externally-caused Auspice performance issues (2024-12-10)
Oropouche Phylogenetic Analysis and Resources (2024-10-22)
Augur v25 features (2024-09-03)
H5N1 Cattle Outbreak Analysis and Resources (2024-06-18)
New Resources for Measles (2024-06-12)
Annual Update March 2024 (2024-03-27)
SARS-CoV-2 clade naming 2022 (2022-04-29)
Ncov Open Announcement (2021-07-08)
Updated SARS-CoV-2 Clade Naming (2021-01-06)
SARS-CoV-2 Clade Naming (2020-06-02)
Using Narratives To Explain West Nile Virus Spread (2019-10-31)
Auspice v2 (2019-10-21)
New Nextstrain Website (2018-05-14)

Resources

Tools

Support

About

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

The core Nextstrain team is

Please see the team page for more details.

All source code is freely available under the terms of the GNU Affero General Public License. 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.

Nextstrain is supported by