├── .gitignore ├── LICENSE ├── README.md ├── deepgo ├── __init__.py ├── aminoacids.py ├── base.py ├── data.py ├── extract_esm.py ├── metrics.py ├── models.py ├── torch_utils.py └── utils.py ├── docker └── Dockerfile ├── evaluate.py ├── evaluate_entailment.py ├── evaluate_tsv.py ├── extra ├── esm_data.py ├── stats.py └── tables.py ├── gendata ├── __init__.py ├── deepgo2_data.py ├── mfpreds_data.py ├── nextprot_annots.py ├── nextprot_data.py ├── nextprot_data_annots.py ├── nextprot_int_data.py ├── pkl2fasta.py ├── ppi_data.py ├── ppi_save_graph.py └── uni2pandas.py ├── generate_data.sh ├── groovy ├── Corpus.groovy ├── Normalizer.groovy └── makeEl.groovy ├── naive.py ├── predict.py ├── requirements.txt ├── specific_terms.py ├── sprof.py ├── tale.py ├── tests ├── __init__.py └── deepgo │ ├── __init__.py │ ├── test_metrics.py │ ├── test_models.py │ └── test_utils.py ├── train.py ├── train_cnn.py ├── train_dgg.py ├── train_gat.py ├── train_gat_se.sh ├── train_mlp.py └── train_se.sh 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