Function that performs a sanity check of query VCF for pcgrr package, ensuring that all required tags are present in annotated VCF — data_integrity_check • PCGR

Function that performs a sanity check of query VCF for pcgrr package, ensuring that all required tags are present in annotated VCF

Usage

data_integrity_check(vcf_df, pcgr_data, config = NULL, workflow = "pcgr")

Arguments

vcf_df: data frame with variants from VCF
pcgr_data: PCGR data object
config: PCGR/CPSR config object
workflow: type of workflow (pcgr/cpsr)