net.maizegenetics.analysis.modelfitter

Class AbstractAdditiveSite

net.maizegenetics.analysis.modelfitter.AbstractAdditiveSite

All Implemented Interfaces:

AdditiveSite

Direct Known Subclasses:

GenotypeAdditiveSite, RefProbAdditiveSite

public class AbstractAdditiveSite
implements AdditiveSite

This class holds data for a variant site to provide an object to hold data used and returned by a stepwise model fitter. That makes it convenient to use in a parallel stream for processing.

Field Detail

siteIndex

protected int siteIndex

chrName

protected java.lang.String chrName

position

protected int position

name

protected java.lang.String name

criterionValue

protected double criterionValue

selectionCriterion

protected net.maizegenetics.analysis.modelfitter.AdditiveSite.CRITERION selectionCriterion

direction

protected int direction

Constructor Detail

AbstractAdditiveSite

public AbstractAdditiveSite(int site,
                            java.lang.String chromosomeName,
                            int pos,
                            java.lang.String id,
                            net.maizegenetics.analysis.modelfitter.AdditiveSite.CRITERION selectionCriterion)

Parameters:

site - a zero based index of sites

chromosomeName - a chromosome name (String)

pos - the integer position in the chromosome

id - a name for this site

selectionCriterion - the selection criterion to be use to pick a site

Method Detail

siteNumber

public int siteNumber()

chromosomeName

public java.lang.String chromosomeName()

position

public int position()

siteName

public java.lang.String siteName()

criterionValue

public double criterionValue()

criterionValue

public void criterionValue(double value)

selectionCriterion

public net.maizegenetics.analysis.modelfitter.AdditiveSite.CRITERION selectionCriterion()

compareTo

public int compareTo(AdditiveSite other)