htsjdk.beta.plugin.hapref

Interface HaploidReferenceDecoder

All Superinterfaces:

java.lang.AutoCloseable, java.io.Closeable, HtsDecoder<SAMSequenceDictionary,ReferenceSequence>, HtsQuery<ReferenceSequence>, java.lang.Iterable<ReferenceSequence>

All Known Implementing Classes:

FASTADecoderV1_0

public interface HaploidReferenceDecoder
extends HtsDecoder<SAMSequenceDictionary,ReferenceSequence>

Base class for all HtsContentType.HAPLOID_REFERENCE decoders.

Method Summary

Methods inherited from interface htsjdk.beta.plugin.HtsDecoder

close, getDisplayName, getFileFormat, getHeader, getVersion

Methods inherited from interface htsjdk.beta.plugin.interval.HtsQuery

hasIndex, isQueryable, iterator, query, query, query, query, queryContained, queryContained, queryContained, queryOverlapping, queryOverlapping, queryOverlapping, queryStart

Methods inherited from interface java.lang.Iterable

forEach, spliterator