case variants to the (typically unfiltered)
control variants and returns
case, with the additional
control.total.depth, corresponding to
annotateWithControlDepth(case, control, control.cov)
The variants of interest, as a
The control variants, typically unfiltered, as a
The control coverage, as an
case variant is not found in
control, a count of
0 is assigned to
control.alt.depth, under the assumption
control object is not filtered, i.e., it contains the
case, plus two new metadata columns,
callSampleSpecificVariants, which uses this function.
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