Describes a genetic locus with multiple possible alleles, a genotype, and observational support. More...

Public Attributes
string	name = 1
	A locus may have an identifying name. More...

repeated< Path >	allele = 2

repeated< Support >	support = 3
	These supports are per-allele, matching the alleles above. More...

repeated< Genotype >	genotype = 4

Support	overall_support = 5

repeated< double >	allele_log_likelihood = 6

Detailed Description

Describes a genetic locus with multiple possible alleles, a genotype, and observational support.

Member Data Documentation

repeated<Path> vg::Locus::allele = 2

These are all the alleles at the locus, not just the called ones. Note that a primary reference allele may or may not appear.

repeated<double> vg::Locus::allele_log_likelihood = 6

We track the likelihood of each allele individually, in addition to genotype likelihoods. Stores the likelihood natural logged.

repeated<Genotype> vg::Locus::genotype = 4

sorted by likelihood or posterior the first one is the "call"

string vg::Locus::name = 1

A locus may have an identifying name.

Support vg::Locus::overall_support = 5

We also have a Support for the locus overall, because reads may have supported multiple alleles and we want to know how many total there were.

repeated<Support> vg::Locus::support = 3

These supports are per-allele, matching the alleles above.

The documentation for this struct was generated from the following file: