LICENSE
README.md
pyproject.toml
src/specimux/__init__.py
src/specimux/alignment.py
src/specimux/bloom_filter.py
src/specimux/cli.py
src/specimux/constants.py
src/specimux/converter.py
src/specimux/core.py
src/specimux/databases.py
src/specimux/demultiplex.py
src/specimux/io_utils.py
src/specimux/models.py
src/specimux/multiprocessing_utils.py
src/specimux/orchestration.py
src/specimux/specimine.py
src/specimux/trace.py
src/specimux/trace_stats.py
src/specimux/visualize.py
src/specimux/watch.py
src/specimux.egg-info/PKG-INFO
src/specimux.egg-info/SOURCES.txt
src/specimux.egg-info/dependency_links.txt
src/specimux.egg-info/entry_points.txt
src/specimux.egg-info/requires.txt
src/specimux.egg-info/top_level.txt
tests/test_integration.py
tests/test_orientation_normalization.py