Can you please provide
a) GATK version used
b) Exact GATK commands used
c) The entire error log if applicable.
Hello, my group and I are new to this field. I have been following tutorial(s) 11682 and 11683 for sensitive detection of copy ratio alterations and applying it to benign tissue. I found a tool called (mergeLevels) and am wondering if the output from the sensitive copy ratio pipeline would be compatible for this tool or if anyone has used it in the past? If not, would there be any reason that the output from the pipline could not be used?
I appreciate any insight into this if anyone has tried before!
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