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
tests/cli/__init__.py
tests/cli/test_cli_commands.py
tests/data/TCGA-DC-6682.vcf
tests/data/constrain_example.vcf.gz
tests/data/constrain_example_1.vcf
tests/data/mutec2_indel.vcf.gz
tests/data/pindel_header.vcf
tests/data/test_cli_full_pipeline_from_vcf_to_projection_and_snapshot.txt
tests/data/test_full_pipeline_from_vcf_to_projection_and_snapshot.txt
tests/data/vcfs/test_input.zip
tests/integration/test_pipeline.py