Uses of Class
net.maizegenetics.pangenome.hapCalling.HapCountBestPathPlugin

Packages that use HapCountBestPathPlugin

Package	Description
net.maizegenetics.pangenome.hapCalling

Uses of HapCountBestPathPlugin in net.maizegenetics.pangenome.hapCalling

Methods in net.maizegenetics.pangenome.hapCalling that return HapCountBestPathPlugin

Modifier and Type	Method and Description
HapCountBestPathPlugin	HapCountBestPathPlugin.bfInfoFilename(String value) Set Bf Info File.
HapCountBestPathPlugin	HapCountBestPathPlugin.emissionMethod(ReferenceRangeEmissionProbability.METHOD value) Set Emission Method.
HapCountBestPathPlugin	HapCountBestPathPlugin.graphExportBasename(String value) Set Graph Export.
HapCountBestPathPlugin	HapCountBestPathPlugin.haplotypeCountsId(Integer value) Set Hap Counts Id.
HapCountBestPathPlugin	HapCountBestPathPlugin.inclusionFilename(String value) Set Inclusion File.
HapCountBestPathPlugin	HapCountBestPathPlugin.maxNodesPerRange(Integer value) Set Max Nodes.
HapCountBestPathPlugin	HapCountBestPathPlugin.maxReadsPerKB(Integer value) Set Max Reads.
HapCountBestPathPlugin	HapCountBestPathPlugin.minReads(Integer value) Set Min Reads.
HapCountBestPathPlugin	HapCountBestPathPlugin.minTaxaPerRange(Integer value) Set Min Taxa.
HapCountBestPathPlugin	HapCountBestPathPlugin.minTransitionProb(Double value) Set Min Transition Prob.
HapCountBestPathPlugin	HapCountBestPathPlugin.pathInfoFilename(String value) Set Path Info File.
HapCountBestPathPlugin	HapCountBestPathPlugin.probReadMappedCorrectly(Double value) Set Prob Correct.
HapCountBestPathPlugin	HapCountBestPathPlugin.refRangeFile(String value) Set Ref Range File.
HapCountBestPathPlugin	HapCountBestPathPlugin.splitTaxa(Boolean value) Set Split Taxa.
HapCountBestPathPlugin	HapCountBestPathPlugin.splitTransitionProb(Double value) Set Split Prob.
HapCountBestPathPlugin	HapCountBestPathPlugin.targetTaxon(String value) Set Target.
HapCountBestPathPlugin	HapCountBestPathPlugin.taxaFilterString(String value) Set Taxa.
HapCountBestPathPlugin	HapCountBestPathPlugin.useBackwardForward(Boolean value) Set Usebf.