LICENSE
MANIFEST.in
README.rst
pyproject.toml
requirements.txt
requirements_dev.txt
setup.py
src/str_mut_signatures/__init__.py
src/str_mut_signatures/cli.py
src/str_mut_signatures.egg-info/PKG-INFO
src/str_mut_signatures.egg-info/SOURCES.txt
src/str_mut_signatures.egg-info/dependency_links.txt
src/str_mut_signatures.egg-info/entry_points.txt
src/str_mut_signatures.egg-info/not-zip-safe
src/str_mut_signatures.egg-info/requires.txt
src/str_mut_signatures.egg-info/top_level.txt
src/str_mut_signatures/extract_tally/extract_mutations.py
src/str_mut_signatures/extract_tally/filter.py
src/str_mut_signatures/extract_tally/tally.py
src/str_mut_signatures/extract_tally/validate.py
src/str_mut_signatures/nmf/__init__.py
src/str_mut_signatures/nmf/nmf.py
src/str_mut_signatures/nmf/plot.py
tests/conftest.py
tests/test_extract_mutations.py
tests/test_filter.py
tests/test_nmf.py
tests/test_tally.py
tests/test_validate.py
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tests/output/matrix_ru_length_ref_change.tsv
tests/output/matrix_ru_seq_change_only.tsv
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tests/output/single_sample.vcf
tests/output/unphased.vcf
tests/output/cli_integration_pipeline/matrix_filtered.tsv
tests/output/cli_integration_pipeline/matrix_raw.tsv
tests/output/cli_integration_pipeline/new_exposures_single_vcf.tsv
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tests/output/cli_integration_pipeline/nmf_results/exposures.tsv
tests/output/cli_integration_pipeline/nmf_results/groups.tsv
tests/output/cli_integration_pipeline/nmf_results/metadata.json
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