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1.2_brenda_statistics.ipynb
1.2_brenda_statistics.ipynb
 
 
1.3_amino_acid_propensities.ipynb
1.3_amino_acid_propensities.ipynb
 
 
10.General_network.ipynb
10.General_network.ipynb
 
 
2.1.script_aminoacid_propensities.py
2.1.script_aminoacid_propensities.py
 
 
2.2_iupred3.ipynb
2.2_iupred3.ipynb
 
 
2.3_run_omegafold.sh
2.3_run_omegafold.sh
 
 
2.4_omegafold_results.ipynb
2.4_omegafold_results.ipynb
 
 
2_3_inference_zymCTLR.ipynb
2_3_inference_zymCTLR.ipynb
 
 
2_4_BLAST_Results.ipynb
2_4_BLAST_Results.ipynb
 
 
2_create_ds_zymCTRL.py
2_create_ds_zymCTRL.py
 
 
2_create_natural_ds.ipynb
2_create_natural_ds.ipynb
 
 
3.1_ProteInfer_notebook.ipynb
3.1_ProteInfer_notebook.ipynb
 
 
4.1_transfer_learning.ipynb
4.1_transfer_learning.ipynb
 
 
4.2_redundancy_generation.ipynb
4.2_redundancy_generation.ipynb
 
 
4.3.tSNE_exploration.ipynb
4.3.tSNE_exploration.ipynb
 
 
4.3.tsne_script.py
4.3.tsne_script.py
 
 
5.1_Plot_ppl_vs_no_of_sequences_EC_class.ipynb
5.1_Plot_ppl_vs_no_of_sequences_EC_class.ipynb
 
 
5.3.generate_sequences_for_groups.ipynb
5.3.generate_sequences_for_groups.ipynb
 
 
5.4_Perplexity_of_invented_labels.ipynb
5.4_Perplexity_of_invented_labels.ipynb
 
 
5.5_Perplexity_of_out-of-dataset_labels.ipynb
5.5_Perplexity_of_out-of-dataset_labels.ipynb
 
 
5.6.1_Compare_perplexity_across_datasets.ipynb
5.6.1_Compare_perplexity_across_datasets.ipynb
 
 
5.6_Compare_perplexity_across_datasets.ipynb
5.6_Compare_perplexity_across_datasets.ipynb
 
 
6.mmsearch_various_analyses.ipynb
6.mmsearch_various_analyses.ipynb
 
 
7.EC2GO.ipynb
7.EC2GO.ipynb
 
 
7.esm_fold_generated.ipynb
7.esm_fold_generated.ipynb
 
 
7.esm_fold_natural.ipynb
7.esm_fold_natural.ipynb
 
 
7.mmseqs_networks.ipynb
7.mmseqs_networks.ipynb
 
 
8.1_Sequence_selection_based_on_GO_terms.ipynb
8.1_Sequence_selection_based_on_GO_terms.ipynb
 
 
8.2_Filtering_of_sequences_on_GO_and_TM.ipynb
8.2_Filtering_of_sequences_on_GO_and_TM.ipynb
 
 
8.3_Carbonic_analysis.ipynb
8.3_Carbonic_analysis.ipynb
 
 
8.4_carbonic_anhydrases_alpha.ipynb
8.4_carbonic_anhydrases_alpha.ipynb
 
 
8.5_carbonic_anhydrases_beta.ipynb
8.5_carbonic_anhydrases_beta.ipynb
 
 
8.6.1_Filtering_the_carbonic_anhydrases.ipynb
8.6.1_Filtering_the_carbonic_anhydrases.ipynb
 
 
8.6_Filtering_blast_results.ipynb
8.6_Filtering_blast_results.ipynb
 
 
8.selection_4.2.1.1.ipynb
8.selection_4.2.1.1.ipynb
 
 
9.selection_glutamine_kinases.ipynb
9.selection_glutamine_kinases.ipynb
 
 
README.md
README.md
 
 

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