├── LICENSE ├── README.md ├── analysis_notebooks ├── benchmark_and_demo_v1.ipynb └── cluster.ipynb ├── checkpoint └── readme.md ├── data ├── cross_fold_validation │ ├── fold_seq_0.npy │ ├── fold_seq_1.npy │ ├── fold_seq_2.npy │ ├── fold_seq_3.npy │ ├── fold_seq_4.npy │ ├── fold_struc_0.npy │ ├── fold_struc_1.npy │ ├── fold_struc_2.npy │ ├── fold_struc_3.npy │ └── fold_struc_4.npy └── readme.md ├── environment.yml ├── example ├── 2zh6_B.npy ├── 2zh6_B.pdb └── pred_seq.fasta ├── model_arc.png └── src ├── RhoDesign.py ├── RhoDesign_without2d.py ├── alphabet.py ├── benchmark_and_demo_v1.ipynb ├── cluster.ipynb ├── eval_model.py ├── gvp_src ├── __init__.py ├── features.py ├── gvp_encoder.py └── gvp_modules.py ├── gvp_transformer_encoder.py ├── gvp_transformer_encoder_without2d.py ├── inference.py ├── inference_without2d.py ├── transformer_src ├── __init__.py ├── multihead_attention.py ├── transformer_decoder.py └── transformer_layer.py └── util.py /LICENSE: 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