.gitignore
.readthedocs.yaml
LICENSE
MANIFEST.in
README.md
environment.yml
pyproject.toml
requirements.txt
setup.py
.github/workflows/integration.yml
docs/Makefile
docs/conf.py
docs/hairloom.rst
docs/index.rst
docs/make.bat
docs/modules.rst
hairloom/__init__.py
hairloom/cli.py
hairloom/collect.py
hairloom/datatypes.py
hairloom/utils.py
hairloom.egg-info/PKG-INFO
hairloom.egg-info/SOURCES.txt
hairloom.egg-info/dependency_links.txt
hairloom.egg-info/entry_points.txt
hairloom.egg-info/requires.txt
hairloom.egg-info/top_level.txt
hairloom/data/__init__.py
hairloom/data/test.bam
hairloom/data/test.bam.bai
hairloom/data/test_datatypes.fasta
hairloom/data/test_datatypes.fasta.fai
hairloom/data/test_reads.bam
hairloom/data/test_reads.bam.bai
hairloom/data/test_ref.fasta
hairloom/data/test_ref.fasta.fai
hairloom/data/cli/breakpoints.txt
hairloom/data/cli/extract.txt
hairloom/data/cli/segments.txt
hairloom/data/cli/svs.txt
tests/test_cli.py
tests/test_collect.py
tests/test_datatypes.py
tests/test_utils.py
tests/scripts/make_test_data.py