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Variant Calling by Unified Genotyper
I am using GATK version 3.6 tool Unified Genotyper for variant calling in pooled data set but I am unable to detect mutation in positive control, but when I used GATK 3.5 Unified Genotyper, I am able to detect the mutation in positive control.
Can you please explain what are the changes in the new version in Unified Genotyper and why this is happening?
Thanks in advance.