DepthOfCoverage summary reports too many bases

RaphaelKRaphaelK BaltimorePosts: 4Member

I'm a bit confused about some of the output of GATK's DepthOfCoverage script. In the *.GATK.covdepth.sample_summary, what does the "total" column signify? Is it the total number of base pairs in the data? Because my raw read data has ~37.2 billion bp. However, GATK reports over 92 billion bp. Does the 'total' mean something else, or will I have to rerun the DepthofCoverage script?

Thanks in advance!


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