Briefly describe the feature and provide meaningful references
Similar to the custom wf, we want to add an option to cavatica wf that allows users to perform clinvar annotation with a user-provided ClinVar vcf file, rather than use the ClinVar annotations in the sample vcf. This would allow users to update a previously-annotated sample with ClinVar info from a later date.
What input data are required for this feature or analysis?
This will be tested on the cavatica test data in the project repo
How do you plan to organise the feature or analysis - will it be a multi-function call or add to existing functions?
This will require updates to the 02-annotate_variants_cavatica_workflow.R script
Who will complete the feature request (please add a GitHub handle here if relevant)?
Purpose/implementation Section
Briefly describe the feature and provide meaningful references
Similar to the custom wf, we want to add an option to cavatica wf that allows users to perform clinvar annotation with a user-provided ClinVar vcf file, rather than use the ClinVar annotations in the sample vcf. This would allow users to update a previously-annotated sample with ClinVar info from a later date.
What input data are required for this feature or analysis?
This will be tested on the cavatica test data in the project repo
How do you plan to organise the feature or analysis - will it be a multi-function call or add to existing functions?
This will require updates to the
02-annotate_variants_cavatica_workflow.RscriptWho will complete the feature request (please add a GitHub handle here if relevant)?
@rjcorb