public void AddLocus(CalledAllele variant)
{
ReferenceName.Add(variant.Chromosome);
ReferencePosition.Add(variant.ReferencePosition);
ChrIndexer.Add(variant.Chromosome + ":" + variant.ReferencePosition.ToString(), Count);
NumIndexer.Add(Count, variant.Chromosome + ":" + variant.ReferencePosition.ToString());
int dp = variant.TotalCoverage;
if (dp < AdaptiveGenotyperCalculator.MaxEffectiveDepth)
{
Dp.Add(dp);
Ad.Add(VariantReader.GetAlternateAlleleSupport(variant));
}
else
{
var(ad, depth) = AdaptiveGenotyperCalculator.DownsampleVariant(
VariantReader.GetAlternateAlleleSupport(variant), dp);
Dp.Add(depth);
Ad.Add(ad);
}
Count++;
}
