LICENSE
README.md
pyproject.toml
src/homerun/__init__.py
src/homerun/__main__.py
src/homerun/bedgraphs.py
src/homerun/config.py
src/homerun/mapping.py
src/homerun/metadata.py
src/homerun/pipeline.py
src/homerun/prepare.py
src/homerun/qc.py
src/homerun/qc_excel.py
src/homerun/report.py
src/homerun/ritrie.py
src/homerun/stability.py
src/homerun/tagdirs.py
src/homerun/trim.py
src/homerun/tss.py
src/homerun/utils.py
src/homerun_csRNA.egg-info/PKG-INFO
src/homerun_csRNA.egg-info/SOURCES.txt
src/homerun_csRNA.egg-info/dependency_links.txt
src/homerun_csRNA.egg-info/entry_points.txt
src/homerun_csRNA.egg-info/requires.txt
src/homerun_csRNA.egg-info/top_level.txt
tests/test_cli.py
tests/test_config.py
tests/test_metadata.py
tests/test_metadata_integration.py
tests/test_package.py
tests/test_qc.py
tests/test_sample_parsing.py
tests/test_slurm_scripts.py