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rna-downstream-tasks

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Caleb Ellington commited on
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  1. modification_site_prediction/readme.txt +2 -0
  2. modification_site_prediction/test.tsv +3 -0
  3. modification_site_prediction/train.tsv +3 -0
  4. modification_site_prediction/valid.tsv +3 -0
  5. ncrna_family_classification/bnoise0/test.tsv +3 -0
  6. ncrna_family_classification/bnoise0/train.tsv +3 -0
  7. ncrna_family_classification/bnoise0/valid.tsv +3 -0
  8. ncrna_family_classification/bnoise200/test.tsv +3 -0
  9. ncrna_family_classification/bnoise200/train.tsv +3 -0
  10. ncrna_family_classification/bnoise200/valid.tsv +3 -0
  11. ncrna_family_classification/readme.txt +1 -0
  12. protein_abundance/athaliana_5fold_cv_split.tsv +3 -0
  13. protein_abundance/dmelanogaster_5fold_cv_split.tsv +3 -0
  14. protein_abundance/ecoli_5fold_cv_split.tsv +3 -0
  15. protein_abundance/hsapiens_5fold_cv_split.tsv +3 -0
  16. protein_abundance/scerevisiae_5fold_cv_split.tsv +3 -0
  17. splice_site_prediction/acceptor/test_Danio.tsv +3 -0
  18. splice_site_prediction/acceptor/test_Fly.tsv +3 -0
  19. splice_site_prediction/acceptor/test_Thaliana.tsv +3 -0
  20. splice_site_prediction/acceptor/test_Worm.tsv +3 -0
  21. splice_site_prediction/acceptor/train.tsv +3 -0
  22. splice_site_prediction/acceptor/valid.tsv +3 -0
  23. splice_site_prediction/donor/test_Danio.tsv +3 -0
  24. splice_site_prediction/donor/test_Fly.tsv +3 -0
  25. splice_site_prediction/donor/test_Thaliana.tsv +3 -0
  26. splice_site_prediction/donor/test_Worm.tsv +3 -0
  27. splice_site_prediction/donor/train.tsv +3 -0
  28. splice_site_prediction/donor/valid.tsv +3 -0
  29. splice_site_prediction/readme.txt +5 -0
  30. transcript_abundance/athaliana_5fold_cv_split.tsv +3 -0
  31. transcript_abundance/dmelanogaster_5fold_cv_split.tsv +3 -0
  32. transcript_abundance/ecoli_5fold_cv_split.tsv +3 -0
  33. transcript_abundance/hsapiens_5fold_cv_split.tsv +3 -0
  34. transcript_abundance/hvolcanii_5fold_cv_split.tsv +3 -0
  35. transcript_abundance/ppastoris_5fold_cv_split.tsv +3 -0
  36. transcript_abundance/scerevisiae_5fold_cv_split.tsv +3 -0
  37. translation_efficiency/HEK_10fold_cv_split.tsv +3 -0
  38. translation_efficiency/Muscle_10fold_cv_split.tsv +3 -0
  39. translation_efficiency/pc3_10fold_cv_split.tsv +3 -0
modification_site_prediction/readme.txt ADDED
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+ dataset label mapping to modification sites:
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+ {'labels_0': 'hAm', 'labels_1': 'hCm', 'labels_2': 'hGm', 'labels_3': 'hTm', 'labels_4': 'hm1A', 'labels_5': 'hm5C', 'labels_6': 'hm5U', 'labels_7': 'hm6A', 'labels_8': 'hm6Am', 'labels_9': 'hm7G', 'labels_10': 'hPsi', 'labels_11': 'Atol'}
modification_site_prediction/test.tsv ADDED
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splice_site_prediction/readme.txt ADDED
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+ - train: Spliceator_Data/Train_test_sets/GS/GS_1/Train_"+subtask_name+"_400.csv"
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+ - valid: Spliceator_Data/Train_test_sets/GS/GS_1/Test_"+subtask_name+"_400.csv"
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+ - test: 4 species "Danio", "Fly", "Worm", "Thaliana"
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+ - seqs: data_path = spliceator/Data/Benchmarks/"+test_type+"/SA_sequences_"+subtask_name+"_400_Final_3.fasta"
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+ - labels: spliceator/Data/Benchmarks/"+test_type+"/SA_labels_"+subtask_name+"_400_Final_3.fasta"
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