├── .gitignore ├── README.md ├── model_training └── scripts │ ├── Whole_Blood_test.R │ ├── check_job_logs.py │ ├── create_covariances.py │ ├── filter_dbs.R │ ├── gtex_tiss_chr_elasticnet.pbs │ ├── gtex_tiss_chrom_training.R │ ├── gtex_v7_elasticnet.R │ ├── gtex_v7_nested_cv_elnet.R │ ├── make_dbs.R │ ├── results_analysis.R │ ├── simulation.R │ ├── submit_training_jobs.sh │ └── whole_blood_test.pbs └── prepare_data ├── expression ├── get_donors_by_tissue.py ├── normalize_expression.py └── normalize_v7.sh └── genotype ├── concat_vcfs.sh ├── fix_chr12.sh ├── format_geno_from_vcf_for_predictdb.sh └── split_snp_annot_by_chr.py /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/hakyimlab/PredictDB_Pipeline_GTEx_v7/HEAD/.gitignore -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- 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