net.maizegenetics.dna.snp

Enum GenotypeTable.ALLELE_SORT_TYPE

Enclosing interface:

GenotypeTable

public static enum GenotypeTable.ALLELE_SORT_TYPE

This defines the possible allele scope types.

Enum Constant Detail

Frequency

net.maizegenetics.dna.snp.GenotypeTable.ALLELE_SORT_TYPE Frequency

This is the default where alleles are sorted by frequency. Same as alleles().

Depth

net.maizegenetics.dna.snp.GenotypeTable.ALLELE_SORT_TYPE Depth

This sorts alleles based on there depth value.

Global_Frequency

net.maizegenetics.dna.snp.GenotypeTable.ALLELE_SORT_TYPE Global_Frequency

This uses the allele frequency of a base/global Genotype table determine sort order of alleles. That Genotype table is usually a superset.

Reference

net.maizegenetics.dna.snp.GenotypeTable.ALLELE_SORT_TYPE Reference

This sorts alleles based on the reference sequence.