├── .gitignore ├── LICENSE ├── MANIFEST.in ├── README.md ├── bmxp ├── __init__.py ├── blueshift │ ├── __init__.py │ ├── blueshift_example.py │ └── readme.md ├── chroma │ ├── __init__.py │ ├── accessions.py │ ├── base64.h │ ├── full_test.py │ ├── main.c │ ├── main.py │ ├── main_dataclasses.py │ ├── mzml_parser.py │ ├── numpress.c │ ├── parsefinnigan.c │ ├── parsemzml.c │ ├── rawfile.c │ ├── rawfilereader.dll │ ├── rawfilereader.so │ └── readme.md ├── eclipse │ ├── __init__.py │ ├── eclipse_example.py │ └── readme.md ├── formation │ ├── __init__.py │ ├── formation_plots.py │ └── readme.md └── gravity │ ├── __init__.py │ ├── correlation.c │ ├── correlation.dll │ ├── correlation.so │ ├── fallback.py │ ├── gravity_example.py │ └── readme.md ├── pyproject.toml ├── requirements.txt └── tests ├── 1_non_clique.pickle ├── DCinfo1.csv ├── DCinfo2.csv ├── DCinput1.csv ├── DCinput2.csv ├── DS1.csv ├── DS2.csv ├── DS3.csv ├── DS4.csv ├── all_cliques.pickle ├── blueshift.pickle ├── example1.csv ├── 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