net.maizegenetics.pangenome.db_loading

Class GenoHaploData

java.lang.Object

net.maizegenetics.pangenome.db_loading.GenoHaploData

public class GenoHaploData
extends Object

Object to hold data needed to populate the genotypes and haplotypes tables. These tables should be populated at the same time. The data is stored in a single object to facilitate making a single call to WGSSqlite to populate both. Hopefully combining them won't be a problem when we need to grab data later. I assume we'd want data from both tables.

Author:

lcj34

Constructor Summary

Constructors

Constructor and Description
GenoHaploData(int ploidy, boolean is_ref, String line_name, String line_data, boolean isPhasedAcrossGenes, boolean isPhasedAcrossChromosomes, int hapNumber, float phasingConfidence)

Method Summary

Modifier and Type	Method and Description
int	hapNumber()
boolean	is_reference()
boolean	isPhasedAcrossChromosomes()
boolean	isPhasedAcrossGenes()
String	line_data()
String	line_name()
float	phasingConfidence()
int	ploidy()

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

GenoHaploData

public GenoHaploData(int ploidy,
                     boolean is_ref,
                     String line_name,
                     String line_data,
                     boolean isPhasedAcrossGenes,
                     boolean isPhasedAcrossChromosomes,
                     int hapNumber,
                     float phasingConfidence)

Method Detail

ploidy

public int ploidy()

is_reference

public boolean is_reference()

line_name

public String line_name()

line_data

public String line_data()

isPhasedAcrossGenes

public boolean isPhasedAcrossGenes()

isPhasedAcrossChromosomes

public boolean isPhasedAcrossChromosomes()

hapNumber

public int hapNumber()

phasingConfidence

public float phasingConfidence()