Package htsjdk.variant.bcf2

Class BCF2GenotypeFieldDecoders

java.lang.Object

htsjdk.variant.bcf2.BCF2GenotypeFieldDecoders

public class BCF2GenotypeFieldDecoders
extends Object

An efficient scheme for building and obtaining specialized genotype field decoders. Used by the BCFCodec to parse with little overhead the fields from BCF2 encoded genotype records

Since:

6/12

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
static interface	BCF2GenotypeFieldDecoders.Decoder	Decoder a field (implicit from creation) encoded as typeDescriptor in the decoder object in the GenotypeBuilders one for each sample in order.

Constructor Summary

Constructors

Constructor	Description
BCF2GenotypeFieldDecoders(VCFHeader header)

Method Summary

Modifier and Type	Method	Description
BCF2GenotypeFieldDecoders.Decoder	getDecoder(String field)	Return decoder appropriate for field, or the generic decoder if no specialized one is bound

Methods inherited from class java.lang.Object

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

Constructor Details

BCF2GenotypeFieldDecoders

public BCF2GenotypeFieldDecoders(VCFHeader header)

Method Details

getDecoder

public BCF2GenotypeFieldDecoders.Decoder getDecoder(String field)

Return decoder appropriate for field, or the generic decoder if no specialized one is bound

Parameters:

field - the GT field to decode

Returns:

a non-null decoder