VRSAnnotator

Description

GA4GH VRS identifiers provide a standardized way to represent genomic variations, making it easier to exchange, harmonize, and integrate genomic information.

This workflow provides a way for you to annotate a VCF with GA4GH Variation Representation Specification (VRS) Allele IDs! Varying configuration such as genome assemvly, a VRS ID is created for both the reference and alternate allele for each variant.

This can be easily run with the VRS AnVIL workspace, which provides tools to enable the use of GA4GH VRS IDs on the Terra platform.

Inputs

• input_vcf_path (File): Google resource path of VCF file (gs://)
• output_vcf_name (String): Name of annotated VCF file with its file extension (vcf.gz)
• seqrepo_tarball (File, optional): Google resource path for seqrepo tarball (tar.gz). Defaults to tarball stored in the requestor pays VRS AnVIL Workspace.
• compute_for_ref (boolean, optional): Whether to compute both the ref and alt allele or compute only the alt allele for each variant. Defaults to true, computing both.
• genome_assembly (String, optional): enome assembly or genome build used by the VCF. Defaults to "GRCh38", but "GRCh37" is also supported.