| # Path Configuration | |
| from tools.preprocess import * | |
| # Processing context | |
| trait = "Anxiety_disorder" | |
| # Input paths | |
| tcga_root_dir = "../DATA/TCGA" | |
| # Output paths | |
| out_data_file = "./output/preprocess/3/Anxiety_disorder/TCGA.csv" | |
| out_gene_data_file = "./output/preprocess/3/Anxiety_disorder/gene_data/TCGA.csv" | |
| out_clinical_data_file = "./output/preprocess/3/Anxiety_disorder/clinical_data/TCGA.csv" | |
| json_path = "./output/preprocess/3/Anxiety_disorder/cohort_info.json" | |
| # No TCGA cohort is suitable for anxiety disorder analysis since TCGA focuses on cancer data and does not | |
| # contain psychiatric/psychological clinical variables. None of the available cancer cohorts contain | |
| # anxiety-related clinical data. | |
| validate_and_save_cohort_info( | |
| is_final=False, | |
| cohort="TCGA", | |
| info_path=json_path, | |
| is_gene_available=False, | |
| is_trait_available=False | |
| ) |