This site is now read-only. You can find our new documentation site and support forum for posting questions here.
Be sure to read our welcome blog!
VCF files: DP and AD fields definition: confilicting information
I am a bit confused with the definition of DP field in the vcf file generated by UnifiedGenotyper. The following page:
says that DP is "Total (unfiltered) depth over all samples." which implies that DP is number of NOT-FILTERED reads at a given locus.
However in the detailed text, it says "The DP field describe the total depth of reads that passed the Unified Genotypers internal quality control metrics". This implies that DP is number of FILTERED reads at a given locus.
Could you please clarify this? Also could you clarify if AD is for filtered or unfiltered reads.