Question: Workflow reference genome
3.0 years ago by
wjt • 0
wjt • 0 wrote:
Dear GALAXY team,
In a workflow, is it possible to change the database type of an output file from hg_g1k_v37 to hg19? For example, I'm using GATK Unified Genotyper to call variants relative to hg_g1k_v37 and then use ANNOVAR to annotate but ANNOVAR only works with hg19 so I need to edit the VCF attributes from hg_g1k_v37 to hg19. Running these steps manually in the history pane using edit attributes to change the database works but I'd like to automate this in a workflow. Thanks.