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Update E. coli models to v3-3000 (886-feature retrain)
Refresh all 5 per-drug model.skops + nocall_bands.json and features/ feature_columns.json from Darkroom4364/genome-firewall-ecoli. Feature set grows 600->886 (trained on ~3000 genomes); AMRFinderPlus DB unchanged (4.2.7 / 2026-03-24.1). Verified each model's feature_names_in_ matches feature_columns.json order and the pipeline predicts end-to-end. Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>48439da -
Add AMRFinderPlus mapping and prediction features
- Implemented `map_evidence.py` to map AMRFinderPlus hits to drug resistance evidence, including self-testing functionality. - Created `gf_infer.py` for generating antibiotic-response predictions from AMRFinderPlus TSV files. - Added model files and no-call bands for ampicillin, cefotaxime, ciprofloxacin, gentamicin, and trimethoprim-sulfamethoxazole. - Introduced `serve.py` to provide a FastAPI interface for predicting antibiotic resistance from genome FASTA inputs. - Added metadata and requirements files for project dependencies and tool information.19fdb7b -
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