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Hierarchy For Package net.maizegenetics.pangenome.processAssemblyGenomes
Package Hierarchies:
All Packages
Class Hierarchy
net.maizegenetics.pangenome.processAssemblyGenomes.
RampSeqContigToGenomeIntervalPlugin
net.maizegenetics.pangenome.processAssemblyGenomes.
AssemblyHaplotypesMultiThreadPlugin
net.maizegenetics.pangenome.processAssemblyGenomes.
ResizeRefBlockPlugin
net.maizegenetics.pangenome.processAssemblyGenomes.
MAFToGVCFPlugin
net.maizegenetics.pangenome.processAssemblyGenomes.
GVCFBedfileMetricPlugin.ChromosomeGVCFRecord
net.maizegenetics.pangenome.processAssemblyGenomes.
MAFToGVCFPluginKt
net.maizegenetics.pangenome.processAssemblyGenomes.
MafUtilsKt
net.maizegenetics.pangenome.processAssemblyGenomes.
RetrieveGenomeFileDataPluginKt
net.maizegenetics.pangenome.processAssemblyGenomes.
AlterNucmerFirstLinePluginKt
net.maizegenetics.pangenome.processAssemblyGenomes.
PairedSimilarFragment
net.maizegenetics.pangenome.processAssemblyGenomes.
AssemblyMAFFromAnchorWavePlugin.InputChannelData
net.maizegenetics.pangenome.processAssemblyGenomes.
SplitASMContigsByLengthPlugin
net.maizegenetics.pangenome.processAssemblyGenomes.
RetrieveGenomeFileDataPlugin
net.maizegenetics.pangenome.processAssemblyGenomes.
SplitASMContigsByLengthPluginKt
net.maizegenetics.pangenome.processAssemblyGenomes.
MAFToGVCFPlugin.MAFRecord
net.maizegenetics.pangenome.processAssemblyGenomes.
CreateASMCoordsUpdateFilesPlugin.UpdateData
net.maizegenetics.pangenome.processAssemblyGenomes.
FindRampSeqContigsInAssemblies
net.maizegenetics.pangenome.processAssemblyGenomes.
AssemblyHaplotypesPlugin
net.maizegenetics.pangenome.processAssemblyGenomes.
GVCFBedfileMetricPluginKt
net.maizegenetics.pangenome.processAssemblyGenomes.
MafUtils
net.maizegenetics.pangenome.processAssemblyGenomes.
MummerScriptProcessing
net.maizegenetics.pangenome.processAssemblyGenomes.
RedirectStreams
net.maizegenetics.pangenome.processAssemblyGenomes.
CreateASMCoordsUpdateFilesPluginKt
net.maizegenetics.pangenome.processAssemblyGenomes.
AssemblyHaplotypesMultiThreadPlugin.InputChannelData
net.maizegenetics.pangenome.processAssemblyGenomes.
AssemblyMAFFromAnchorWavePlugin
net.maizegenetics.pangenome.processAssemblyGenomes.
AssemblyConsensusMetricPlugin
net.maizegenetics.pangenome.processAssemblyGenomes.
Mummer4DoonerBZStats
net.maizegenetics.pangenome.processAssemblyGenomes.
AssemblyHaplotypesMultiThreadPluginKt
net.maizegenetics.pangenome.processAssemblyGenomes.
AlterNucmerFirstLinePlugin
net.maizegenetics.pangenome.processAssemblyGenomes.
SyntenicAnchors
net.maizegenetics.pangenome.processAssemblyGenomes.
GVCFBedfileMetricPlugin
net.maizegenetics.pangenome.processAssemblyGenomes.
MAFToGVCFPlugin.AssemblyVariantInfo
net.maizegenetics.pangenome.processAssemblyGenomes.
AssemblyProcessingUtils
net.maizegenetics.pangenome.processAssemblyGenomes.
AssemblyMAFFromAnchorWavePluginKt
net.maizegenetics.pangenome.processAssemblyGenomes.
AssemblyHapMetricPlugin
net.maizegenetics.pangenome.processAssemblyGenomes.
ScorePafFileByNMThresholdPlugin
net.maizegenetics.pangenome.processAssemblyGenomes.
AssemblyHapMetricPluginKt
net.maizegenetics.pangenome.processAssemblyGenomes.
AssemblyConsensusMetricPluginKt
net.maizegenetics.pangenome.processAssemblyGenomes.
ScorePafFileByNMThresholdPluginKt
net.maizegenetics.pangenome.processAssemblyGenomes.
MummerAnalysisMetricsPlugin
net.maizegenetics.pangenome.processAssemblyGenomes.
CreateASMCoordsUpdateFilesPlugin.RefRangeData
net.maizegenetics.pangenome.processAssemblyGenomes.
CreateContigFastaFromAssemblyGenomePlugin
net.maizegenetics.pangenome.processAssemblyGenomes.
AssemblyHaplotypesMultiThreadPlugin.ResultChannelData
net.maizegenetics.pangenome.processAssemblyGenomes.
MAFToGVCFPlugin.AlignmentBlock
net.maizegenetics.pangenome.processAssemblyGenomes.
CreateASMCoordsUpdateFilesPlugin
Enum Hierarchy
net.maizegenetics.pangenome.processAssemblyGenomes.
AssemblyHaplotypesPlugin.ASSEMBLY_ENTRY_POINT
net.maizegenetics.pangenome.processAssemblyGenomes.
MAFToGVCFPlugin.OUTPUT_TYPE
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