net.maizegenetics.pangenome.hapCalling

Class VCFMetricsPlugin.VCFSummary

net.maizegenetics.pangenome.hapCalling.VCFMetricsPlugin.VCFSummary

Enclosing class:

VCFMetricsPlugin

public static class VCFMetricsPlugin.VCFSummary

Data class containing summary statistics for a particular file or contig/chromosome

Constructor Detail

VCFSummary

public VCFSummary(@NotNull
                  java.lang.String name,
                  int numSNPs,
                  int numIndels,
                  int basesAligned,
                  int basesInserted,
                  int basesDeleted,
                  int basesGapped,
                  long totalBases,
                  @NotNull
                  java.util.List<java.lang.Integer> indelSizes)

Data class containing summary statistics for a particular file or contig/chromosome

Method Detail

getName

@NotNull
public java.lang.String getName()

getNumSNPs

public int getNumSNPs()

getNumIndels

public int getNumIndels()

getBasesAligned

public int getBasesAligned()

getBasesInserted

public int getBasesInserted()

getBasesDeleted

public int getBasesDeleted()

getBasesGapped

public int getBasesGapped()

getTotalBases

public long getTotalBases()

getIndelSizes

@NotNull
public java.util.List<java.lang.Integer> getIndelSizes()

component1

@NotNull
public java.lang.String component1()

component2

public int component2()

component3

public int component3()

component4

public int component4()

component5

public int component5()

component6

public int component6()

component7

public int component7()

component8

public long component8()

component9

@NotNull
public java.util.List<java.lang.Integer> component9()

copy

@NotNull
public net.maizegenetics.pangenome.hapCalling.VCFMetricsPlugin.VCFSummary copy(@NotNull
                                                                                        java.lang.String name,
                                                                                        int numSNPs,
                                                                                        int numIndels,
                                                                                        int basesAligned,
                                                                                        int basesInserted,
                                                                                        int basesDeleted,
                                                                                        int basesGapped,
                                                                                        long totalBases,
                                                                                        @NotNull
                                                                                        java.util.List<java.lang.Integer> indelSizes)

Data class containing summary statistics for a particular file or contig/chromosome

toString

@NotNull
public java.lang.String toString()

hashCode

public int hashCode()

equals

public boolean equals(@Nullable
                      java.lang.Object p)