Data sources¶
All external URLs are defined in internal/sources/sources.go -- a single file that documents every URL the tool accesses.
| Data | Source | Used by |
|---|---|---|
| Parquet metadata (assembly, QC, species, MLST, AMR) | OSF (h7wzy) Aggregated/Latest_2025-05/ |
atb fetch |
| ENA metadata (geography, platform, dates) | Same OSF project, optional tables | atb fetch --all |
| AMR/Stress/Virulence genes | AMRFinderPlus v4.2.5 results as amrfinderplus.parquet (~58.5M rows, ~1.18 GB) |
atb amr |
| OSF file index | all_atb_files.tsv (~3,000 files, 75+ categories) | atb osf ls, atb osf download |
| Sketch database | Same OSF project, atb_sketchlib.aggregated.202408 (.skm + .skd, ~4.2 GB) |
atb sketch fetch |
| Genome assemblies | allthebacteria-assemblies.s3.eu-west-2.amazonaws.com |
atb download, atb sketch query --download |
| sketchlib binary | bacpop/sketchlib.rust (Linux/macOS) | atb sketch install |
See also: Fetching & indexing data for how to download these data sources locally.