Question: CollectHsMetrics Mean_Target_Coverage vs. mean_coverage in PER_TARGET_COVERAGE
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gravatar for finswimmer
2.7 years ago by
finswimmer13k
Germany
finswimmer13k wrote:

Hello,

again a question to picard's CollectHsMetrics. I run it with the parameter PER_TARGET_COVERAGE. I would expect that the mean target coverage reported in the HsMetrics file is the same, as the average of all mean coverages reported in the target coverage file.

But in my cases the value in the metrics file is always higher. Where does this differences come from?

fin swimmer

collecthsmetrics picard • 1.4k views
ADD COMMENTlink modified 2.7 years ago • written 2.7 years ago by finswimmer13k
0
gravatar for finswimmer
2.7 years ago by
finswimmer13k
Germany
finswimmer13k wrote:

Argh, it's all about mathematic.

I've forget to include the length of the target regions. Of course the mean coverage over all target regions is sum(mean_target_coverage * length)/sum(length of all target region).

fin swimmer

ADD COMMENTlink written 2.7 years ago by finswimmer13k
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