├── LICENSE ├── README.md ├── examples ├── expected_output │ ├── protein_pairs_input.log │ ├── protein_pairs_input.npz │ ├── segment_pairs_input.log │ └── segment_pairs_input.npz ├── protein_paired_msas │ ├── A1L188_Q5TEU4.i90.a3m │ ├── P11802_P30279.i90.a3m │ ├── P50395_P62820.i90.a3m │ ├── Q13153_Q9H4E5.i90.a3m │ └── Q8TAE8_Q96DV4.i90.a3m ├── protein_pairs ├── protein_pairs_input ├── protein_single_msas │ ├── A1L188.a3m │ ├── P11802.a3m │ ├── P30279.a3m │ ├── P50395.a3m │ ├── P62820.a3m │ ├── Q13153.a3m │ ├── Q5TEU4.a3m │ ├── Q8TAE8.a3m │ ├── Q96DV4.a3m │ └── Q9H4E5.a3m ├── segment_paired_msas │ ├── O00206_S1__Q9Y6Y9_S0.i90.a3m │ ├── O75886_S0__O95630_S0.i90.a3m │ ├── P10244_S0__Q6MZP7_S0.i90.a3m │ ├── Q13547_S0__Q9UKL0_S0.i90.a3m │ └── Q15562_S0__Q9GZV5_S0.i90.a3m ├── segment_pairs ├── segment_pairs_input ├── segment_single_msas │ ├── O00206_S1.a3m │ ├── O75886_S0.a3m │ ├── O95630_S0.a3m │ ├── P10244_S0.a3m │ ├── Q13547_S0.a3m │ ├── Q15562_S0.a3m │ ├── Q6MZP7_S0.a3m │ ├── Q9GZV5_S0.a3m │ ├── Q9UKL0_S0.a3m │ └── Q9Y6Y9_S0.a3m └── test_README ├── generate_protein_pair_MSA.py ├── generate_segment_pair_MSA.py ├── rf2_ppi.png └── src ├── Attention_module.py ├── AuxiliaryPredictor.py ├── Embeddings.py ├── RoseTTAFoldModel.py ├── Track_module.py ├── __pycache__ ├── Attention_module.cpython-310.pyc ├── Attention_module.cpython-39.pyc ├── AuxiliaryPredictor.cpython-310.pyc ├── AuxiliaryPredictor.cpython-39.pyc ├── Embeddings.cpython-310.pyc ├── Embeddings.cpython-39.pyc ├── RoseTTAFoldModel.cpython-310.pyc ├── RoseTTAFoldModel.cpython-39.pyc ├── Track_module.cpython-310.pyc ├── Track_module.cpython-39.pyc ├── chemical.cpython-310.pyc ├── chemical.cpython-39.pyc ├── data_loader.cpython-310.pyc ├── data_loader.cpython-39.pyc ├── kinematics.cpython-310.pyc ├── kinematics.cpython-39.pyc ├── parsers.cpython-310.pyc ├── parsers.cpython-39.pyc ├── util.cpython-310.pyc ├── util.cpython-39.pyc ├── util_module.cpython-310.pyc └── util_module.cpython-39.pyc ├── 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