Phylogenetic evolution of SARS-CoV-2 in Europe including Czech sequences — an interactive tree of variants and their geographic spread.
This dashboard opens Nextstrain — the standard for real-time phylogenomic pathogen surveillance, developed by the Bedford Lab (Fred Hutch / WHO).
What Nextstrain shows
- Phylogenetic tree — evolutionary relationships between SARS-CoV-2 sequences
- Geographic spread — an animation of how variants spread across countries
- Timeline — when each variant emerged and when it dominated
- Czech sequences — the Czech Republic contributes sequences via GISAID
Available Nextstrain builds
| Build | Description |
|---|---|
| ncov/gisaid/europe | Europe — GISAID sequences (includes CZ) |
| ncov/open/global | Global open-data build |
| ncov/open/europe | Europe — open data |
Local Nextstrain build (for your own sequences)
To build from your own or local sequences, a Nextstrain/Augur Docker container is available in docker-compose.yml (profile nextstrain):
docker compose --profile nextstrain run augur --help
Required input files:
nextstrain/data/sequences.fasta— FASTA sequences from GISAID/ENAnextstrain/data/metadata.tsv— metadata (date, source, location)
Nextstrain: open source · Bedford Lab · MIT licence