LICENSE
MANIFEST.in
README.md
pyproject.toml
requirements.txt
remag/__init__.py
remag/__main__.py
remag/_version.py
remag/adaptive_resolution.py
remag/cli.py
remag/clustering.py
remag/core.py
remag/features.py
remag/losses.py
remag/miniprot_utils.py
remag/models.py
remag/output.py
remag/refinement.py
remag/utils.py
remag.egg-info/PKG-INFO
remag.egg-info/SOURCES.txt
remag.egg-info/dependency_links.txt
remag.egg-info/entry_points.txt
remag.egg-info/requires.txt
remag.egg-info/top_level.txt
remag/db/refseq_db.faa.gz
remag/hyenadna_classifier/__init__.py
remag/hyenadna_classifier/hyenadna_model.py
remag/hyenadna_classifier/predictor.py
remag/hyenadna_classifier/standalone_tokenizer.py
remag/hyenadna_classifier/models/pytorch_model.bin
remag/hyenadna_classifier/models/pytorch_model.bin.20251024
scripts/calculate_raw_coverage.py
scripts/plot_features.py
tests/test_clustering.py
tests/test_integration.py
tests/test_miniprot_utils.py
tests/test_performance.py