public StitcherPairFilter(bool skipDuplicates, bool filterForProperPairs, IDuplicateIdentifier dupIdentifier, ReadStatusCounter statusCounter,
bool shouldSkipFusions = true, int minMapQuality = 0, int maxPairGap = 500) : base(true, new StitchingReadPairEvaluator(true, true, false))
{
_skipDuplicates = skipDuplicates;
_filterForProperPairs = filterForProperPairs;
_dupIdentifier = dupIdentifier;
_shouldSkipFusions = shouldSkipFusions;
_minMapQuality = minMapQuality;
_maxPairGap = maxPairGap;
_statusCounter = statusCounter;
OnLog = WriteToLog;
}
public StitcherPairFilter(bool skipDuplicates, bool filterForProperPairs, IDuplicateIdentifier dupIdentifier, ReadStatusCounter statusCounter,
bool shouldSkipFusions = true, uint minMapQuality = 0, int maxPairGap = 500, bool filterPairUnmapped = false, bool filterPairLowMapQ = true) : base(true, new StitchingReadPairEvaluator(true, true, false), false)
{
_skipDuplicates = skipDuplicates;
_filterForProperPairs = filterForProperPairs;
_dupIdentifier = dupIdentifier;
_shouldSkipFusions = shouldSkipFusions;
_minMapQuality = minMapQuality;
_maxPairGap = maxPairGap;
_statusCounter = statusCounter;
_filterPairUnmapped = filterPairUnmapped;
_filterPairLowMapQ = filterPairLowMapQ;
}
