HalfWindowArgs
partitioning
HalfWindowConfig
partitioning
HasAlleleSerializer
variants
HasContig
reference
HasLocus
reference
HasReference
args
HasSampleId
reads
halfWindowSize
AssemblyArgs
HalfWindowArgs
HalfWindowConfig
ContigCoverageIterator
SlidingWindow
hammerlab
org
hasLocusToLocus
HasLocus
hasMaximumMedianMismatch
SomaticMedianMismatchFilter
hasMinimumAlternateReadDepth
MinimumAlternateReadDepthFilter
SomaticAlternateReadDepthFilter
hasMinimumAverageBaseQuality
AverageBaseQualityFilter
SomaticAverageBaseQualityFilter
hasMinimumAverageMappingQuality
AverageMappingQualityFilter
SomaticAverageMappingQualityFilter
hasMinimumLOD
SomaticLogOddsFilter
hasMinimumLikelihood
MinimumLikelihoodFilter
SomaticMinimumLikelihoodFilter
hasMinimumVAF
SomaticVAFFilter
hasNext
SingleContigRegionIterator
ContigIterator
hasVariantAllele
Genotype
head
ContigIterator
headerMetadata
Arguments