LICENSE
README.md
pyproject.toml
src/BranchManager.egg-info/PKG-INFO
src/BranchManager.egg-info/SOURCES.txt
src/BranchManager.egg-info/dependency_links.txt
src/BranchManager.egg-info/entry_points.txt
src/BranchManager.egg-info/requires.txt
src/BranchManager.egg-info/top_level.txt
src/branchmanager/__init__.py
src/branchmanager/cli.py
src/branchmanager/it_desk.py
src/branchmanager/mailroom.py
src/branchmanager/marker_provenance.py
src/branchmanager/onboarding.py
src/branchmanager/partner_metadata.py
src/branchmanager/personnel.py
src/branchmanager/project_config.py
src/branchmanager/project_state.py
src/branchmanager/reporting.py
src/branchmanager/run_manifest.py
src/branchmanager/taxonomy.py
src/branchmanager/taxonomy_io.py
src/branchmanager/data/reference_anchors.fasta
src/branchmanager/data/reference_anchors.tsv
src/branchmanager/db/interface.py
src/branchmanager/db/schema.py
src/branchmanager/pipeline/background_check.py
src/branchmanager/pipeline/chimera.py
src/branchmanager/pipeline/classify.py
src/branchmanager/pipeline/cluster_report.py
src/branchmanager/pipeline/collapse.py
src/branchmanager/pipeline/derep.py
src/branchmanager/pipeline/diversity_metadata.py
src/branchmanager/pipeline/itol.py
src/branchmanager/pipeline/kinnex.py
src/branchmanager/pipeline/mwl.py
src/branchmanager/pipeline/neighbourhood.py
src/branchmanager/pipeline/novelty.py
src/branchmanager/pipeline/paper_trail.py
src/branchmanager/pipeline/qc.py
src/branchmanager/pipeline/quarterly_review.py
src/branchmanager/pipeline/selection_sets.py
src/branchmanager/pipeline/tree.py
src/branchmanager/pipeline/workflow_helpers.py
src/branchmanager/utils/fasta.py
src/branchmanager/utils/subprocess.py
tests/test_operational_workflows.py
tests/test_taxonomy_and_db.py