directory_list.txt

./figures
./figures/supplement
./figures/main
./data/model_weights/ML_weights
./data/model_weights/ML_weights/epitope_17aa
./data/model_weights/ML_weights/epitope_17aa/identity
./data/model_weights/ML_weights/epitope_17aa/chem
./data/model_weights/ML_weights/in-vitro_21aa
./data/model_weights/ML_weights/in-vitro_21aa/identity
./data/model_weights/ML_weights/in-vitro_21aa/chem
./data/model_weights/ML_weights/in-vitro_7aa
./data/model_weights/ML_weights/in-vitro_7aa/identity
./data/model_weights/ML_weights/in-vitro_7aa/chem
./data/model_weights/model_weights_for_pepsickle
./data/model_weights/DL_weights
./data/model_weights/DL_weights/window_7aa
./data/model_weights/DL_weights/window_17aa
./data/training_sets
./data/validation_data
./data/validation_data/digestion_data
./data/validation_data/digestion_data/raw
./data/validation_data/validation_results
./data/validation_data/validation_results/netchop
./data/validation_data/validation_results/pepsickle
./data/validation_data/validation_results/PCPS
./data/validation_data/validation_results/Pcleavage
./data/validation_data/epitope_data
./data/validation_data/pt_data
./data/validation_data/pt_data/blast_output
./data/validation_data/pt_data/pepsickle_pt_summaries
./data/validation_data/pt_data/blast_dbs
./data/validation_data/pt_data/tmp
./data/validation_data/output
./data/validation_data/output/epitope_mod_window_preds
./data/validation_data/output/in-vitro_mod_window_preds
./data/validation_data/output/plots
./data/validation_data/netchop_output
./data/validation_data/validation_sets_pre-filter
./data/validation_data/completed_validation_sets
./data/validation_data/completed_validation_sets/window_fasta_files
./data/validation_data/completed_validation_sets/window_dictionaries
./data/processed
./data/merged