DepthOfCoverage summary reports too many bases

RaphaelKRaphaelK BaltimoreMember

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!

Answers

Sign In or Register to comment.