GATK licensing moves to direct-through-Broad model -- read about it on the GATK blog

HaplotypeCaller with Queue

flescaiflescai Posts: 61Member ✭✭
edited September 2012 in Ask the GATK team

Is there any example of a queue script calling variants with the HaplotypeCaller?
thanks!
Francesco

Post edited by flescai on

Best Answer

  • Geraldine_VdAuweraGeraldine_VdAuwera Posts: 7,632Administrator, GATK Developer admin
    Answer ✓

    Yes @ericminikel, that script can be adapted -to run HaplotypeCaller instead of UnifiedGenotyper. You may need to add some arguments to the argument collection, but it should be fairly straightforward.

    Geraldine Van der Auwera, PhD

Answers

Sign In or Register to comment.