Estimate a threshold for calling LOH from DH based on the location of guessed C1=0 and C1=1 peaks.
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Maximum total copy number of a segment in order to be included in the initial set of segments.
This method requires that calls for allelic balances already have
been me made, cf.
Returns the estimated LOH treshold as a
numeric scalar or -
In case it is not possible to estimate the LOH threshold, then
Inf is returned.
Grabs the segment-level C1 estimates.
Calculate segment weights proportional to the number of heterozygous SNPs.
Estimate the C1=1 location as the weighted median C1 for segments that have been called to be in allelic balance.
Estimate the C1=0 location as the smallest C1 among segments that are not in allelic balance.
Let the LOH threshold be the midpoint of the estimates C1=0 and C1=1 locations.
Instead of calling this method explicitly, it is recommended
to use the
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