├── .gitignore ├── LICENSE ├── README.md ├── data ├── EBV_BMLF1_sc.csv ├── HCMV_pp65_sc.csv ├── InfluenzaA_sc.csv ├── InfluenzaM_sc.csv ├── readme.md ├── tcr_seq.csv ├── testing_data.csv └── training_data.csv ├── example_pic ├── flow_chart_simple.png ├── input_file_example.png ├── output_file_example.png └── pic1.png ├── library ├── Atchley_factors.csv ├── bg_tcr_library │ ├── TCR_10k_bg_seq.csv │ ├── TCR_output_10k.csv │ └── TCR_output_1k.csv ├── h5_file │ ├── HLA_antigen_encoder_60.h5 │ ├── TCR_encoder_30.h5 │ └── weights.h5 └── hla_library │ ├── A_prot.fasta │ ├── B_prot.fasta │ ├── C_prot.fasta │ └── E_prot.fasta ├── pMTnet.py └── test ├── code ├── ternary_train_encoding.py └── ternary_train_model_pMTnet.py ├── example_cmd.sh ├── input └── test_input.csv └── output ├── output.log └── prediction.csv /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/tianshilu/pMTnet/HEAD/.gitignore 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