Processing Data¶
We have downloaded most of the small dataset in the repository.
Drug-Target Binding Benchmark Dataset¶
We list public Drug-Target Binding Benchmark Dataset that is supported by DeepPurpose and corresponding downloading and processing function.
Dataset | downloading and processing Function |
---|---|
BindingDB | download_BindingDB() to download the data and process_BindingDB() to process the data |
DAVIS | load_process_DAVIS() to download and process the data |
KIBA | load_process_KIBA() to download and process the data |
Download Link
Repurposing Dataset¶
We list public Repurposing Dataset that is supported by DeepPurpose and corresponding downloading and processing function.
Dataset | downloading and processing Function |
---|---|
Curated Antiviral Drugs Library | load_antiviral_drugs() to load and process the data |
Broad Repurposing Hub | load_broad_repurposing_hub() downloads and process the data |
Download Link
Bioassay Data for COVID-19¶
Dataset | downloading and processing Function |
---|---|
AID1706 | load_AID1706_SARS_CoV_3CL() to load and process |
Download Link
COVID-19 Targets¶
Dataset | downloading and processing Function |
---|---|
SARS-CoV 3CL Protease | load_SARS_CoV_Protease_3CL() |
SARS-CoV2 3CL Protease | load_SARS_CoV2_Protease_3CL() |
SARS_CoV2 RNA Polymerase | load_SARS_CoV2_RNA_polymerase() |
SARS-CoV2 Helicase | load_SARS_CoV2_Helicase() |
SARS-CoV2 3to5_exonuclease | load_SARS_CoV2_3to5_exonuclease() |
SARS-CoV2 endoRNAse | load_SARS_CoV2_endoRNAse() |
- read_file_training_dataset_bioassay
- read_file_training_dataset_drug_target_pairs
- read_file_virtual_screening_drug_target_pairs
- load bioarray dataset (read_file_training_dataset_bioassay)
- read_file_target_sequence
- download_DrugTargetCommons
- process_BindingDB
- load_process_DAVIS
- load_process_KIBA
- load_AID1706_txt_file
- load_AID1706_SARS_CoV_3CL
- load_antiviral_drugs
- load_broad_repurposing_hub