| import pandas as pd |
| import os |
|
|
| catalog_path = "C:/Users/Swamy/OneDrive - Zafrens/Desktop/Z-Screen Deepdive/Shared_Source_Data_June2026/external_reference/catalog/external_reference_dataset_catalog.csv" |
| metadata_path = "C:/Users/Swamy/OneDrive - Zafrens/Desktop/Z-Screen Deepdive/Shared_Source_Data_June2026/external_reference/scperturb_downloads/scperturb_summary_metadata.csv" |
|
|
| catalog_df = pd.read_csv(catalog_path) |
| metadata_df = pd.read_csv(metadata_path) |
|
|
| new_rows = [] |
| for _, row in metadata_df.iterrows(): |
| new_rows.append({ |
| "dataset_id": "scperturb_" + row["dataset_id"], |
| "source_alias": "scperturb_h5ad_downloads", |
| "dataset_type": "scPerturb Single-Cell H5AD", |
| "primary_metadata_path": "data/external_reference/scperturb_downloads/scperturb_summary_metadata.csv", |
| "primary_signature_path": "data/external_reference/scperturb_downloads/" + row["file"], |
| "metadata_rows": row["num_perturbations"], |
| "signature_rows": row["num_cells"], |
| "signature_columns": row["num_genes"], |
| "processing_summary": "Raw H5AD downloaded from scPerturb Zenodo. Native AnnData format, enabling direct comparison." |
| }) |
|
|
| new_rows_df = pd.DataFrame(new_rows) |
| updated_catalog = pd.concat([catalog_df, new_rows_df], ignore_index=True) |
|
|
| updated_catalog.to_csv(catalog_path, index=False) |
| print("Successfully appended 10 datasets to external_reference_dataset_catalog.csv") |
|
|
