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Test-drive the GATK tools and Best Practices pipelines on Terra
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VariantRecal without reference
If I'm calling variants on an organism (or population) without established common/known variants, is performing variant recalibration redundant? My provisional approach would be to use high-quality calls as a reference variant set, and then recalibrate based upon these, but I'm really not sure if this is correct.
I have read the documentation so apologies if it clearly answers my question already.