Downloads a tabix-indexed VCF file (.vcf.gz and .vcf.gz.tbi) with variants
associated with disease phenotypes (as found in the NHGRI-EBI GWAS catalog).
Only variants where the risk-allele is properly identified are included here.
The GWAS_HIT element of the INFO column has the following format:
rsid|risk_allele|pmid|tag_snp|p_valule|efo_id
Arguments
- cache_dir
Local directory for data download
- force_download
Logical indicating if local cache should be overwritten (set to TRUE to force download if file exists in cache)
- build
genome assembly (grch37/grch38)
- cancer_only
logical indicating retrieval of all variants versus cancer-associated variants only