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Manual Parquet conversion and custom split definitions for HF viewer

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  1. README.md +10 -1
  2. fitness_prediction/assays/{A0A2Z5U3Z0_9INFA_Doud_2016.csv → A0A2Z5U3Z0_9INFA_Doud_2016.parquet} +2 -2
  3. fitness_prediction/assays/Andreasson_2020_ribozyme.csv +0 -0
  4. fitness_prediction/assays/{C6KNH7_9INFA_Lee_2018.csv → Andreasson_2020_ribozyme.parquet} +2 -2
  5. fitness_prediction/assays/BCHB_CHLTE_Tsuboyama_2023_2KRU.csv +0 -0
  6. fitness_prediction/assays/{CAPSD_AAV2S_Sinai_2021.csv → BCHB_CHLTE_Tsuboyama_2023_2KRU.parquet} +2 -2
  7. fitness_prediction/assays/BLAT_ECOLX_Firnberg_2014.csv +0 -0
  8. fitness_prediction/assays/{CBS_HUMAN_Sun_2020.csv → BLAT_ECOLX_Firnberg_2014.parquet} +2 -2
  9. fitness_prediction/assays/BLAT_ECOLX_Jacquier_2013.csv +0 -0
  10. fitness_prediction/assays/BLAT_ECOLX_Jacquier_2013.parquet +3 -0
  11. fitness_prediction/assays/BRCA1_HUMAN_Findlay_2018.csv +0 -0
  12. fitness_prediction/assays/BRCA1_HUMAN_Findlay_2018.parquet +3 -0
  13. fitness_prediction/assays/Beck_2022_ribozyme.csv +0 -0
  14. fitness_prediction/assays/Beck_2022_ribozyme.parquet +3 -0
  15. fitness_prediction/assays/C6KNH7_9INFA_Lee_2018.parquet +3 -0
  16. fitness_prediction/assays/CALM1_HUMAN_Weile_2017.csv +0 -0
  17. fitness_prediction/assays/CALM1_HUMAN_Weile_2017.parquet +3 -0
  18. fitness_prediction/assays/CAPSD_AAV2S_Sinai_2021.parquet +3 -0
  19. fitness_prediction/assays/CBS_HUMAN_Sun_2020.parquet +3 -0
  20. fitness_prediction/assays/CCDB_ECOLI_Adkar_2012.csv +0 -0
  21. fitness_prediction/assays/CCDB_ECOLI_Adkar_2012.parquet +3 -0
  22. fitness_prediction/assays/DLG4_RAT_McLaughlin_2012.csv +0 -0
  23. fitness_prediction/assays/DLG4_RAT_McLaughlin_2012.parquet +3 -0
  24. fitness_prediction/assays/DOCK1_MOUSE_Tsuboyama_2023_2M0Y.csv +0 -0
  25. fitness_prediction/assays/DOCK1_MOUSE_Tsuboyama_2023_2M0Y.parquet +3 -0
  26. fitness_prediction/assays/Domingo_2018_tRNA.csv +0 -0
  27. fitness_prediction/assays/Domingo_2018_tRNA.parquet +3 -0
  28. fitness_prediction/assays/ESTA_BACSU_Nutschel_2020.csv +0 -0
  29. fitness_prediction/assays/ESTA_BACSU_Nutschel_2020.parquet +3 -0
  30. fitness_prediction/assays/F7YBW8_MESOW_Ding_2023.csv +0 -0
  31. fitness_prediction/assays/F7YBW8_MESOW_Ding_2023.parquet +3 -0
  32. fitness_prediction/assays/GFP_AEQVI_Sarkisyan_2016.csv +0 -3
  33. fitness_prediction/assays/GFP_AEQVI_Sarkisyan_2016.parquet +3 -0
  34. fitness_prediction/assays/Guy_2014_tRNA.csv +0 -0
  35. fitness_prediction/assays/Guy_2014_tRNA.parquet +3 -0
  36. fitness_prediction/assays/HECD1_HUMAN_Tsuboyama_2023_3DKM.csv +0 -0
  37. fitness_prediction/assays/HECD1_HUMAN_Tsuboyama_2023_3DKM.parquet +3 -0
  38. fitness_prediction/assays/IF1_ECOLI_Kelsic_2016.csv +0 -0
  39. fitness_prediction/assays/IF1_ECOLI_Kelsic_2016.parquet +3 -0
  40. fitness_prediction/assays/Janzen_2022_fam1a1_ribozyme.csv +0 -0
  41. fitness_prediction/assays/Janzen_2022_fam1a1_ribozyme.parquet +3 -0
  42. fitness_prediction/assays/Janzen_2022_fam1b1_ribozyme.csv +0 -0
  43. fitness_prediction/assays/Janzen_2022_fam1b1_ribozyme.parquet +3 -0
  44. fitness_prediction/assays/Janzen_2022_fam21_ribozyme.csv +0 -0
  45. fitness_prediction/assays/Janzen_2022_fam21_ribozyme.parquet +3 -0
  46. fitness_prediction/assays/Janzen_2022_fam22_ribozyme.csv +0 -0
  47. fitness_prediction/assays/Janzen_2022_fam22_ribozyme.parquet +3 -0
  48. fitness_prediction/assays/Janzen_2022_fam31_ribozyme.csv +0 -0
  49. fitness_prediction/assays/Janzen_2022_fam31_ribozyme.parquet +3 -0
  50. fitness_prediction/assays/Julien_2016_mRNA.csv +0 -190
README.md CHANGED
@@ -5,6 +5,15 @@ tags:
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  - biology
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  - RNA
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  - fitness
 
 
 
 
 
 
 
 
 
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  license: cc-by-4.0
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  ---
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  # 🧬 RNAGym
@@ -29,4 +38,4 @@ RNAGym brings together >1 M mutational fitness measurements and curated RNA stru
29
 
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  ## Scripts
31
 
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- Scripts and code for running all baseline benchmarks are available at https://github.com/MarksLab-DasLab/RNAGym
 
5
  - biology
6
  - RNA
7
  - fitness
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+ configs:
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+ - config_name: default
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+ data_files:
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+ - split: fitness
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+ path: fitness_prediction/**/*.parquet
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+ - split: secondary_structure
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+ path: secondary_structure_prediction/**/*.parquet
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+ - split: tertiary_structure
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+ path: tertiary_structure_prediction/*.parquet
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  license: cc-by-4.0
18
  ---
19
  # 🧬 RNAGym
 
38
 
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  ## Scripts
40
 
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+ Scripts and code for running all baseline benchmarks are available at https://github.com/MarksLab-DasLab/RNAGym
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