# Path Configuration | |
from tools.preprocess import * | |
# Processing context | |
trait = "Migraine" | |
# Input paths | |
tcga_root_dir = "../DATA/TCGA" | |
# Output paths | |
out_data_file = "./output/preprocess/3/Migraine/TCGA.csv" | |
out_gene_data_file = "./output/preprocess/3/Migraine/gene_data/TCGA.csv" | |
out_clinical_data_file = "./output/preprocess/3/Migraine/clinical_data/TCGA.csv" | |
json_path = "./output/preprocess/3/Migraine/cohort_info.json" | |
# Review the TCGA subdirectories for datasets relevant to Migraine | |
# No directory clearly related to migraine was found | |
# Record that this trait cannot be processed due to lack of suitable data | |
validate_and_save_cohort_info( | |
is_final=False, | |
cohort="TCGA", | |
info_path=json_path, | |
is_gene_available=True, # TCGA has gene expression data | |
is_trait_available=False # No suitable migraine data found | |
) |