A repository for the preparing manuscript "A platform/webserver for genomic data analysis, reporting, and interpretation"
why PGS scores are hard to generate based on singel-sample vcf of WGS files: see discussion PGScatalog/pgsc_calc#98
my_pipeline/
├── Snakefile # Snakemake
├── config.yaml # config
├── envs/
│ ├── vep.yaml # vep conda env
│ ├── python.yaml # python conda env
│ └── ...
├── scripts/
│ └── pythonpipelinefix_AWSconnection.py # vep annotated analysis py script
├── vcf/ # original vcf
│ └── sample1.vcf
├── vcf_pass/ # vcf file after filtering "PASS"
├── vep/ # vep.annotated
└── python_results/ # results files from py script