usher-exploring

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gbanyan e488ff2d7a feat(06-01): add negative control validation with housekeeping genes

- Create negative_controls.py with 13 curated housekeeping genes
- HOUSEKEEPING_GENES_CORE frozenset with source provenance
- compile_housekeeping_genes() returns DataFrame matching known_genes pattern
- validate_negative_controls() uses PERCENT_RANK with inverted threshold logic
- generate_negative_control_report() provides human-readable output

2026-02-12 04:39:48 +08:00

.planning

docs(06): create phase plan

2026-02-12 04:33:17 +08:00

config

feat(01-01): create Python package scaffold with config system

2026-02-11 16:24:35 +08:00

src/usher_pipeline

feat(06-01): add negative control validation with housekeeping genes

2026-02-12 04:39:48 +08:00

tests

test(05-03): add CliRunner integration tests for report command