Classes and Subpackages of org.broadinstitute.gatk.tools.walkers.phasing

org.broadinstitute.gatk.tools.walkers.phasing.AllelePair
org.broadinstitute.gatk.tools.walkers.phasing.BaseArray
org.broadinstitute.gatk.tools.walkers.phasing.CardinalityCounter
org.broadinstitute.gatk.tools.walkers.phasing.CloneableIteratorLinkedList
org.broadinstitute.gatk.tools.walkers.phasing.CloneableIteratorLinkedList$CloneableIterator
org.broadinstitute.gatk.tools.walkers.phasing.CloneableIteratorLinkedList$CloneableIteratorDoublyLinkedNode
org.broadinstitute.gatk.tools.walkers.phasing.DisjointSet
org.broadinstitute.gatk.tools.walkers.phasing.DisjointSet$ItemNode
org.broadinstitute.gatk.tools.walkers.phasing.DistanceMergeRule
org.broadinstitute.gatk.tools.walkers.phasing.ExistsDoubleAltAlleleMergeRule
org.broadinstitute.gatk.tools.walkers.phasing.Haplotype
org.broadinstitute.gatk.tools.walkers.phasing.HaplotypeClass
org.broadinstitute.gatk.tools.walkers.phasing.MergeSegregatingAlternateAllelesVCFWriter
org.broadinstitute.gatk.tools.walkers.phasing.MergeSegregatingAlternateAllelesVCFWriter$AltAlleleStats
org.broadinstitute.gatk.tools.walkers.phasing.MergeSegregatingAlternateAllelesVCFWriter$AltAlleleStatsForSamples
org.broadinstitute.gatk.tools.walkers.phasing.MergeSegregatingAlternateAllelesVCFWriter$VCFRecord
org.broadinstitute.gatk.tools.walkers.phasing.MultipleBaseCounts
org.broadinstitute.gatk.tools.walkers.phasing.PhaseByTransmission
org.broadinstitute.gatk.tools.walkers.phasing.PhaseByTransmission$TrioPhase
org.broadinstitute.gatk.tools.walkers.phasing.PhaseByTransmissionIntegrationTest
org.broadinstitute.gatk.tools.walkers.phasing.PhaseCounts
org.broadinstitute.gatk.tools.walkers.phasing.PhasingGraph
org.broadinstitute.gatk.tools.walkers.phasing.PhasingGraph$AllEdgesIterator
org.broadinstitute.gatk.tools.walkers.phasing.PhasingGraph$Neighbors
org.broadinstitute.gatk.tools.walkers.phasing.PhasingGraphEdge
org.broadinstitute.gatk.tools.walkers.phasing.PhasingQualityStatsWriter
org.broadinstitute.gatk.tools.walkers.phasing.PhasingRead
org.broadinstitute.gatk.tools.walkers.phasing.PhasingScore
org.broadinstitute.gatk.tools.walkers.phasing.PhasingStats
org.broadinstitute.gatk.tools.walkers.phasing.PhasingStatsAndOutput
org.broadinstitute.gatk.tools.walkers.phasing.PhasingUtils
org.broadinstitute.gatk.tools.walkers.phasing.PhasingUtils$AlleleMergeRule
org.broadinstitute.gatk.tools.walkers.phasing.PhasingUtils$AlleleOneAndTwo
org.broadinstitute.gatk.tools.walkers.phasing.PhasingUtils$MergedAllelesData
org.broadinstitute.gatk.tools.walkers.phasing.PhasingUtils$SameHaplotypeAlleles
org.broadinstitute.gatk.tools.walkers.phasing.PreciseNonNegativeDouble
org.broadinstitute.gatk.tools.walkers.phasing.ReadBackedPhasing
org.broadinstitute.gatk.tools.walkers.phasing.ReadBackedPhasing$GenotypeAndReadBases
org.broadinstitute.gatk.tools.walkers.phasing.ReadBackedPhasing$HaplotypeTableCreator
org.broadinstitute.gatk.tools.walkers.phasing.ReadBackedPhasing$MaxHaplotypeAndQuality
org.broadinstitute.gatk.tools.walkers.phasing.ReadBackedPhasing$MultipleBaseCountsWriter
org.broadinstitute.gatk.tools.walkers.phasing.ReadBackedPhasing$PhaseResult
org.broadinstitute.gatk.tools.walkers.phasing.ReadBackedPhasing$PhasingTable
org.broadinstitute.gatk.tools.walkers.phasing.ReadBackedPhasing$PhasingTable$PhasingTableEntry
org.broadinstitute.gatk.tools.walkers.phasing.ReadBackedPhasing$PhasingWindow
org.broadinstitute.gatk.tools.walkers.phasing.ReadBackedPhasing$PhasingWindow$EdgeToReads
org.broadinstitute.gatk.tools.walkers.phasing.ReadBackedPhasing$PhasingWindow$IntegerSet
org.broadinstitute.gatk.tools.walkers.phasing.ReadBackedPhasing$PhasingWindow$SortSitesBySumOfDist
org.broadinstitute.gatk.tools.walkers.phasing.ReadBackedPhasing$TableCreatorOfHaplotypeAndComplementForDiploidAlleles
org.broadinstitute.gatk.tools.walkers.phasing.ReadBackedPhasing$UnfinishedVariantAndReads
org.broadinstitute.gatk.tools.walkers.phasing.ReadBackedPhasing$UnfinishedVariantContext
org.broadinstitute.gatk.tools.walkers.phasing.ReadBackedPhasing$VariantAndReads
org.broadinstitute.gatk.tools.walkers.phasing.ReadBackedPhasingIntegrationTest
org.broadinstitute.gatk.tools.walkers.phasing.ReadBase
org.broadinstitute.gatk.tools.walkers.phasing.ReadBasesAtPosition
org.broadinstitute.gatk.tools.walkers.phasing.SNPallelePair
org.broadinstitute.gatk.tools.walkers.phasing.SampleReadLocus
org.broadinstitute.gatk.tools.walkers.phasing.SegregatingMNPmergeAllelesRule
org.broadinstitute.gatk.tools.walkers.phasing.VariantContextMergeRule

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All Classes in org.broadinstitute.gatk.tools.walkers.phasing