Update: July 26, 2019
This section of the forum is now closed; we are working on a new support model for WDL that we will share here shortly. For Cromwell-specific issues, see the Cromwell docs and post questions on Github.

WDL supports non-GATK programs?

Does WDL (+Chromwell) support the execution of non-GATK programs like BWA, samtools, BEDtools, VCFtools, Novoalign, Snpeff, Annovar, etc.?

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