Forked from v12 of the canonical ncov workflow github.com/nextstrain/ncov on Aug 12, 2022.
Visible live at nextstrain.org/groups/blab/ncov/escape.
Run with:
snakemake -c 1 -j 1 -p --profile escape_profiles/escape auspice/ncov_escape.json
if Nextstrain toolkit is installed locally. Or if using Docker and CLI, run with:
nextstrain build . --profile escape_profiles/escape auspice/ncov_escape.json
Visualize locally with:
auspice view --datasetDir auspice/
Push live with:
nextstrain remote upload nextstrain.org/groups/blab auspice/ncov_escape*.json