Uses of Class
net.maizegenetics.pangenome.processAssemblyGenomes.AssemblyHaplotypesPlugin

Packages that use AssemblyHaplotypesPlugin

Package	Description
net.maizegenetics.pangenome.processAssemblyGenomes

Uses of AssemblyHaplotypesPlugin in net.maizegenetics.pangenome.processAssemblyGenomes

Methods in net.maizegenetics.pangenome.processAssemblyGenomes that return AssemblyHaplotypesPlugin

Modifier and Type	Method and Description
AssemblyHaplotypesPlugin	AssemblyHaplotypesPlugin.assembly(String value) Set Assembly Fasta File.
AssemblyHaplotypesPlugin	AssemblyHaplotypesPlugin.assemblyName(String value) Set Assembly Name.
AssemblyHaplotypesPlugin	AssemblyHaplotypesPlugin.chrom(String value) Set Chromosome Name.
AssemblyHaplotypesPlugin	AssemblyHaplotypesPlugin.clusterSize(Integer value) Set Mummer4 Nucmer Cluster Size .
AssemblyHaplotypesPlugin	AssemblyHaplotypesPlugin.dbConfigFile(String value) Set DB Config File.
AssemblyHaplotypesPlugin	AssemblyHaplotypesPlugin.gVCFOutputDir(String value) Set GVCF Output Dir.
AssemblyHaplotypesPlugin	AssemblyHaplotypesPlugin.mummer4Path(String value) Set Mummer4 binary path
AssemblyHaplotypesPlugin	AssemblyHaplotypesPlugin.outputDir(String value) Set Output Directory.
AssemblyHaplotypesPlugin	AssemblyHaplotypesPlugin.ref(String value) Set Reference Fasta File.