net.maizegenetics.pangenome.pipeline

Class SAMAlignmentMetricsPlugin.ReadNameData

net.maizegenetics.pangenome.pipeline.SAMAlignmentMetricsPlugin.ReadNameData

Enclosing class:

SAMAlignmentMetricsPlugin

public static class SAMAlignmentMetricsPlugin.ReadNameData

Constructor Detail

ReadNameData

public ReadNameData(@NotNull
                    java.lang.String queryName,
                    @NotNull
                    java.lang.String refName,
                    int totalEQ,
                    int totalSNP,
                    int totalM,
                    int totalInserts,
                    int totalDeletes,
                    int editDistance,
                    int totalReadLength,
                    int totalRefLength)

Method Detail

getQueryName

@NotNull
public java.lang.String getQueryName()

getRefName

@NotNull
public java.lang.String getRefName()

getTotalEQ

public int getTotalEQ()

getTotalSNP

public int getTotalSNP()

getTotalM

public int getTotalM()

getTotalInserts

public int getTotalInserts()

getTotalDeletes

public int getTotalDeletes()

getEditDistance

public int getEditDistance()

getTotalReadLength

public int getTotalReadLength()

getTotalRefLength

public int getTotalRefLength()

component1

@NotNull
public java.lang.String component1()

component2

@NotNull
public java.lang.String component2()

component3

public int component3()

component4

public int component4()

component5

public int component5()

component6

public int component6()

component7

public int component7()

component8

public int component8()

component9

public int component9()

component10

public int component10()

copy

@NotNull
public net.maizegenetics.pangenome.pipeline.SAMAlignmentMetricsPlugin.ReadNameData copy(@NotNull
                                                                                                 java.lang.String queryName,
                                                                                                 @NotNull
                                                                                                 java.lang.String refName,
                                                                                                 int totalEQ,
                                                                                                 int totalSNP,
                                                                                                 int totalM,
                                                                                                 int totalInserts,
                                                                                                 int totalDeletes,
                                                                                                 int editDistance,
                                                                                                 int totalReadLength,
                                                                                                 int totalRefLength)

toString

@NotNull
public java.lang.String toString()

hashCode

public int hashCode()

equals

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