├── LICENCE ├── README.md ├── bench_plots_and_stats_covar_pairfreq.R ├── contactbench ├── README └── contactbench.c ├── covar-model-all ├── covar11 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── covar13 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── covar15 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── covar17 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── covar21 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── covar25 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── covar29 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── covar3 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── covar33 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── covar37 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── covar41 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── covar45 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── covar49 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── covar5 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── covar7 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── covar9 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py └── field_sizes.txt ├── covar-model-shallow ├── FINAL_fullmap_metapsicov_model.npz └── nndef.py ├── deepcov.sh ├── extract_results_from_benchmark.sh ├── pairfreq-model-all ├── field_sizes.txt ├── lasagne_rawfreq_pred.py ├── lasagne_rawfreq_pred.py~ ├── pairfreq11 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── pairfreq13 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── pairfreq15 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── pairfreq17 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── pairfreq21 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── pairfreq25 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── pairfreq29 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── pairfreq3 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── pairfreq33 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── pairfreq37 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── pairfreq41 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── pairfreq45 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── pairfreq49 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── pairfreq5 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── pairfreq53 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── pairfreq57 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── pairfreq7 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py └── pairfreq9 │ ├── FINAL_fullmap_metapsicov_model.npz │ └── nndef.py ├── predictor.py ├── run_all_covar_rawfreq.sh ├── run_psicov150_bench_singleRF.sh ├── setup.sh ├── src ├── KeyBeanplotFunctions.R └── cov21stats.c ├── test ├── compare_contacts.py └── example_io │ ├── 1guuA.aln │ └── 1guuA.con 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