Related Issues (20)
- Add sqlite3 cli to augur's bioconda recipe once augur merge PR is merged
- Fix broken links in docs
- Poorly formatted metadata TSV leads to KeyError HOT 1
- Speed up augur filter without replacing Pandas
- Speed up augur filter by replacing Pandas HOT 1
- Speed up augur filter
- Command descriptions mangled in `--help` output HOT 2
- Should `parse-genbank-location` automatically fix region/locality mix ups? HOT 1
- merge: Support sequences HOT 1
- Uncaught error when root not in tree. HOT 9
- Update language around snakemake install
- Write blog post about new features in Augur v25 releases
- Missing trait literals are converted to lower case in augur export stderr output HOT 1
- CLI docs have incorrect default values for options using `store_false` action HOT 2
- augur curate format-host HOT 1
- Simplify probabilistic sampling calculation HOT 2
- filter: Make under-sampling more apparent
- filter: Confusing warning and error combination when query contains a missing column HOT 2
- Use identical help text for shared options
- Subsample has uncaught assertion in ncov HOT 3
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