Searched refs:minAlignLength (Results 1 – 4 of 4) sorted by relevance
189 final Integer minAlignLength) { in firstAlignmentIsTooShort() argument190 …urn first.referenceSpan.size() - AlignmentInterval.overlapOnContig(first, second) < minAlignLength; in firstAlignmentIsTooShort()198 … final Integer mapQThresholdInclusive, final Integer minAlignLength, in nextAlignmentMayBeInsertion() argument201 …ualTooLow(next, mapQThresholdInclusive) || firstAlignmentIsTooShort(next, current, minAlignLength); in nextAlignmentMayBeInsertion()
288 public Integer minAlignLength = DEFAULT_MIN_ALIGNMENT_LENGTH; field in StructuralVariationDiscoveryArgumentCollection.DiscoverVariantsFromContigAlignmentsArgumentCollection326 …ParamUtils.isPositive(minAlignLength, "invalid value provided to minAlignLength: " + minAlignLengt… in validate()
101 uint32 minAlignLength = 40; in main() local154 minAlignLength = atoi(argv[++arg]); in main()
120 new SVAlignmentLengthFilter(discoveryArgs.minAlignLength)); in filterMergedVariantList()