├── .editorconfig ├── .gitignore ├── HISTORY.rst ├── LICENSE ├── MANIFEST.in ├── Makefile ├── README.rst ├── atactk ├── __init__.py ├── command.py ├── data.py ├── metrics.py ├── metrics │ ├── __init__.py │ ├── common.py │ ├── cut.py │ └── mid.py └── util.py ├── docs ├── Makefile ├── _static │ └── img │ │ └── CTCF.png ├── atactk.rst ├── conf.py ├── contributing.rst ├── credits.rst ├── help.rst ├── history.rst ├── index.rst ├── installation.rst ├── intro.rst ├── make.bat ├── modules.rst └── usage.rst ├── requirements.txt ├── scripts ├── make_cut_matrix ├── make_midpoint_matrix ├── measure_features ├── measure_signal ├── plot_aggregate_cut_matrix.R ├── plot_aggregate_matrix.R ├── plot_aggregate_midpoint_matrix.R ├── plot_signal.R └── trim_adapters ├── setup.cfg ├── setup.py ├── tests ├── __init__.py └── test_atactk.py └── tox.ini /.editorconfig: -------------------------------------------------------------------------------- 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