net.maizegenetics.pangenome.api

Class GraphToGenotypeTable

net.maizegenetics.pangenome.api.GraphToGenotypeTable

public class GraphToGenotypeTable

Method Detail

genotypeTable

@NotNull
public static net.maizegenetics.dna.snp.GenotypeTable genotypeTable(@NotNull
                                                                             HaplotypeGraph graph,
                                                                             @NotNull
                                                                             ReferenceRange range,
                                                                             @NotNull
                                                                             net.maizegenetics.taxa.Taxon taxon)

genotypeTable

@NotNull
public static net.maizegenetics.dna.snp.GenotypeTable genotypeTable(@NotNull
                                                                             HaplotypeGraph graph,
                                                                             @NotNull
                                                                             ReferenceRange range,
                                                                             @Nullable
                                                                             net.maizegenetics.taxa.TaxaList taxaList)

nodesForRange

@NotNull
public static java.util.List<net.maizegenetics.pangenome.api.HaplotypeNode> nodesForRange(@NotNull
                                                                                                   HaplotypeGraph graph,
                                                                                                   @NotNull
                                                                                                   ReferenceRange range)

snpPositions

@NotNull
public static java.util.SortedSet<net.maizegenetics.dna.map.Position> snpPositions(@NotNull
                                                                                            java.util.List<? extends net.maizegenetics.pangenome.api.HaplotypeNode> nodes)