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Genome Forge Tutorial Datasets

This folder contains the reproducible sample data used by the self-study tutorial.

Files

  • training_real_world_sequences.fasta: public-source base records bundled directly in FASTA.
  • training_real_world_dataset.json: metadata, sources, case-to-record mapping, and definitions for derived training records.
  • case_playbook.md: compact tutorial checklist.
  • case_bundles/: prebuilt ready-to-load bundles for all 45 cases.
  • extract_case_bundle.py: helper that writes a case-specific FASTA bundle plus a manifest JSON.

Quick Use

python3 docs/tutorial/datasets/extract_case_bundle.py --list-cases
python3 docs/tutorial/datasets/extract_case_bundle.py --case A --out ./tmp/genomeforge_case_a
python3 docs/tutorial/datasets/extract_case_bundle.py --case K --out ./tmp/genomeforge_case_k

If you want a zero-friction starting point, load the already-generated bundle at docs/tutorial/datasets/case_bundles/case_a/records.fasta (or the matching folder for any other case).

Why derived records exist

Some tutorial cases use clearly labeled training derivatives of public-source records. Those are included so you can practice pairwise comparison, variant interpretation, ambiguity-aware search, and phylogeny-style reasoning on examples with known biological intent.