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SelectVariants for "GQ > 20 || RGQ > 20" selects everything

dmyersturnbulldmyersturnbull Stanford UniversityMember
edited June 2015 in Ask the GATK team

I'm using GATK 3.4.

I'm not sure what to include that's not in the title. I get this in the VCF:

##GATKCommandLine.SelectVariants=<ID=SelectVariants,Version=3.4-0-g7e26428,...,sample_expressions=[GQ > 20 || RGQ > 20]>
...
1       1       .       N       .       .       .       .       GT:DP:RGQ       ./.:0:0

Thanks!
Douglas

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