Hierarchy For Package net.maizegenetics.pangenome.hapcollapse

Package Hierarchies:

• All Packages

Class Hierarchy

• net.maizegenetics.pangenome.hapcollapse.MergeGVCFUtils
• net.maizegenetics.pangenome.hapcollapse.ProfileMxdivPlugin
• net.maizegenetics.pangenome.hapcollapse.RunHapCollapsePipelinePlugin
• net.maizegenetics.pangenome.hapcollapse.RunHapConsensusPipelinePlugin.VariantInfoConsensus
• net.maizegenetics.pangenome.hapcollapse.RunGVCFTyper
• net.maizegenetics.pangenome.hapcollapse.CreateHaplotypesFromFasta
• net.maizegenetics.pangenome.hapcollapse.GVCFUtils
• net.maizegenetics.pangenome.hapcollapse.GVCFTyperPlugin
• net.maizegenetics.pangenome.hapcollapse.ConsensusProcessingUtils
• net.maizegenetics.pangenome.hapcollapse.FillIndelsIntoConsensus
• net.maizegenetics.pangenome.hapcollapse.MergeGVCFPlugin
• net.maizegenetics.pangenome.hapcollapse.ProfileMxdivPluginKt
• net.maizegenetics.pangenome.hapcollapse.ProfileMxdivPlugin.ProfileResult
• net.maizegenetics.pangenome.hapcollapse.QualityReportAnchorsToHaplotypes
• net.maizegenetics.pangenome.hapcollapse.RunHapConsensusPipelinePlugin
• net.maizegenetics.pangenome.hapcollapse.KmerBasedConsensusUtils
• net.maizegenetics.pangenome.hapcollapse.CompareAssembliesToReference
• net.maizegenetics.pangenome.hapcollapse.RankingFilePluginKt
• net.maizegenetics.pangenome.hapcollapse.RankingFilePlugin
• net.maizegenetics.pangenome.hapcollapse.FindHaplotypeClustersPlugin
• net.maizegenetics.pangenome.hapcollapse.ProfileMxdivPlugin.ProfileInput
• net.maizegenetics.pangenome.hapcollapse.PurgeSequencesFromAlignments
• net.maizegenetics.pangenome.hapcollapse.RefAltData
• net.maizegenetics.pangenome.hapcollapse.RunHapConsensusPipelinePlugin.RunMergeAndCluster
• net.maizegenetics.pangenome.hapcollapse.CentroidPathFromGraphPlugin

Enum Hierarchy

• net.maizegenetics.pangenome.hapcollapse.FillIndelsIntoConsensus.INDEL_MERGE_RULE
• net.maizegenetics.pangenome.hapcollapse.FindHaplotypeClustersPlugin.CLUSTER_METHOD
• net.maizegenetics.pangenome.hapcollapse.ProfileMxdivPlugin.DistanceType
• net.maizegenetics.pangenome.hapcollapse.GVCFTyperPlugin.EMIT_MODE
• net.maizegenetics.pangenome.hapcollapse.RunHapConsensusPipelinePlugin.CLUSTERING_MODE
• net.maizegenetics.pangenome.hapcollapse.DistanceCalculation