I'm writing to you because I'd like to know more about the calculation method of the global_read_depth.tsv file obtained in the DetermineGermlineContigPloidy tool calls and in particular the GLOBAL_READ_DEPTH column.
Indeed, I tried to find this value by averaging the counts obtained in the CollectReadCounts tool, but I end up with results that are on average 2 times higher in favor of counting the number of reads per interval of the count file by CollectReadCounts.
Do these two values represent different things?
Thank you, regards.
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