Uses of Class
net.maizegenetics.pangenome.hapcollapse.RunHapCollapsePipelinePlugin

Packages that use RunHapCollapsePipelinePlugin

Package	Description
net.maizegenetics.pangenome.hapcollapse

Uses of RunHapCollapsePipelinePlugin in net.maizegenetics.pangenome.hapcollapse

Methods in net.maizegenetics.pangenome.hapcollapse that return RunHapCollapsePipelinePlugin

Modifier and Type	Method and Description
RunHapCollapsePipelinePlugin	RunHapCollapsePipelinePlugin.clusterMethod(FindHaplotypeClustersPlugin.CLUSTER_METHOD value) Set Cluster Method.
RunHapCollapsePipelinePlugin	RunHapCollapsePipelinePlugin.collapseMethod(String value) Set Collapse Method.
RunHapCollapsePipelinePlugin	RunHapCollapsePipelinePlugin.collapseMethodDetails(String value) Set Collapse Method Details.
RunHapCollapsePipelinePlugin	RunHapCollapsePipelinePlugin.consensusFastaOutputDir(String value) Set Consensus Fasta Output Dir.
RunHapCollapsePipelinePlugin	RunHapCollapsePipelinePlugin.consensusVCFOutputDir(String value) Set Consensus VCF Output Dir.
RunHapCollapsePipelinePlugin	RunHapCollapsePipelinePlugin.dbConfigFile(String value) Set Db Config File.
RunHapCollapsePipelinePlugin	RunHapCollapsePipelinePlugin.mergeRule(FillIndelsIntoConsensus.INDEL_MERGE_RULE value) Set Indel Merge Rule.
RunHapCollapsePipelinePlugin	RunHapCollapsePipelinePlugin.reference(String value) Set Ref.