Test-drive the GATK tools and Best Practices pipelines on Terra
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Intensity Rank Sum Annotator Overlapping Calls
I noticed when I run the Intensity Rank Sum Annotator I get NA values for CNVs that overlap.
In the report file, the first call has a Pvalue, but the second one is NA. I've noticed this for all overlapping calls.
I cannot merge the calls because they are not within 50% recip overlap.
What can I do to avoid this