net.maizegenetics.dna.snp.genotypecall

Class BasicGenotypeMergeRule

net.maizegenetics.dna.snp.genotypecall.BasicGenotypeMergeRule

All Implemented Interfaces:

GenotypeMergeRule

public class BasicGenotypeMergeRule
implements GenotypeMergeRule

Defines the methods for merging the calls from two taxa. The merge rules need to be defined at the level of genotypic calls and for read depth. In general if depth is available, it will be used to merge.

Constructor Detail

BasicGenotypeMergeRule

public BasicGenotypeMergeRule(double errorRate)

Method Detail

isMergePossible

public boolean isMergePossible()

mergeCalls

public byte mergeCalls(byte geno1,
                       byte geno2)

mergeWithDepth

public kotlin.Array[] mergeWithDepth(kotlin.Array[] geno1depths,
                                     kotlin.Array[] geno2depths)

callBasedOnDepth

public byte callBasedOnDepth(kotlin.Array[] genoDepths)

callBasedOnDepth

public byte callBasedOnDepth(kotlin.Array[] genoDepths)