Obtain germline heterozygous markers
Remove uninformative germline homozygous markers for a DNA segment.
numeric vector, original B-allele frequency from a cancer DNA segment
numeric vector, original B-allele frequency from a paired normal DNA segment, with exactly the same length as baf. See details.
numeric, threshold to call germline heterozygous markers.
When paired.baf is given, any marker has germline BAF>=1-thr or BAF<=thr are considered as homozygous. If paired.baf is missing, then in non-LOH regions, the method uses the same criteria to select heterozygous markers; in LOH regions, 1/3 of the markers are randomly selected as germline heterozygous.
a vector of indices indicating the positions of heterozygous markers in input baf.
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