Comments (3)
@shiquan thank you !
from bamdst.
Hi, thank you for your question about map quality and rmdup depth. You are right, duplicated reads and low mapQ reads (< -q INT) will be skipped when trying to calculate rmdup depth.
from bamdst.
Note that there's currently a bug (#12) in this area which means that low map quality reads are not being filtered in the rmdup count. The PR #13 fixes this.
from bamdst.
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from bamdst.