Uses of Package
htsjdk.tribble

Packages that use htsjdk.tribble

Package	Description
htsjdk.tribble
htsjdk.tribble.bed
htsjdk.tribble.example
htsjdk.tribble.gelitext
htsjdk.tribble.index
htsjdk.tribble.index.interval
htsjdk.tribble.index.linear
htsjdk.tribble.index.tabix
htsjdk.variant.bcf2
htsjdk.variant.variantcontext
htsjdk.variant.vcf

Classes in htsjdk.tribble used by htsjdk.tribble

Class and Description
AbstractFeatureCodec Simple basic class providing much of the basic functionality of codecs Every concrete subclass must implement FeatureCodec.canDecode(String) to indicate whether it can decode the file.
AbstractFeatureReader jrobinso the feature reader class, which uses indices and codecs to read in Tribble file formats.
AbstractFeatureReader.ComponentMethods
AsciiFeatureCodec A convenience base class for codecs that want to read in features from ASCII lines.
CloseableTribbleIterator The basic iterator we use in Tribble, which allows closing and basic iteration.
Feature Represents a locus on a reference sequence.
FeatureCodec The base interface for classes that read in features.
FeatureCodecHeader A class to represent a header of a feature containing file.
FeatureReader the basic interface that feature sources need to match
TribbleException

Classes in htsjdk.tribble used by htsjdk.tribble.bed

Class and Description
AbstractFeatureCodec Simple basic class providing much of the basic functionality of codecs Every concrete subclass must implement FeatureCodec.canDecode(String) to indicate whether it can decode the file.
AsciiFeatureCodec A convenience base class for codecs that want to read in features from ASCII lines.
Feature Represents a locus on a reference sequence.
FeatureCodec The base interface for classes that read in features.

Classes in htsjdk.tribble used by htsjdk.tribble.example

Class and Description
BinaryFeatureCodec Implements common methods of FeatureCodecs that read from PositionalBufferedStreams.
Feature Represents a locus on a reference sequence.
FeatureCodec The base interface for classes that read in features.
FeatureCodecHeader A class to represent a header of a feature containing file.
FeatureReader the basic interface that feature sources need to match

Classes in htsjdk.tribble used by htsjdk.tribble.gelitext

Class and Description
AbstractFeatureCodec Simple basic class providing much of the basic functionality of codecs Every concrete subclass must implement FeatureCodec.canDecode(String) to indicate whether it can decode the file.
AsciiFeatureCodec A convenience base class for codecs that want to read in features from ASCII lines.
Feature Represents a locus on a reference sequence.
FeatureCodec The base interface for classes that read in features.

Classes in htsjdk.tribble used by htsjdk.tribble.index

Class and Description
Feature Represents a locus on a reference sequence.
FeatureCodec The base interface for classes that read in features.

Classes in htsjdk.tribble used by htsjdk.tribble.index.interval

Class and Description
Feature Represents a locus on a reference sequence.

Classes in htsjdk.tribble used by htsjdk.tribble.index.linear

Class and Description
Feature Represents a locus on a reference sequence.

Classes in htsjdk.tribble used by htsjdk.tribble.index.tabix

Class and Description
Feature Represents a locus on a reference sequence.

Classes in htsjdk.tribble used by htsjdk.variant.bcf2

Class and Description
BinaryFeatureCodec Implements common methods of FeatureCodecs that read from PositionalBufferedStreams.
Feature Represents a locus on a reference sequence.
FeatureCodec The base interface for classes that read in features.
FeatureCodecHeader A class to represent a header of a feature containing file.

Classes in htsjdk.tribble used by htsjdk.variant.variantcontext

Class and Description
Feature Represents a locus on a reference sequence.

Classes in htsjdk.tribble used by htsjdk.variant.vcf

Class and Description
AbstractFeatureCodec Simple basic class providing much of the basic functionality of codecs Every concrete subclass must implement FeatureCodec.canDecode(String) to indicate whether it can decode the file.
AsciiFeatureCodec A convenience base class for codecs that want to read in features from ASCII lines.
Feature Represents a locus on a reference sequence.
FeatureCodec The base interface for classes that read in features.
NameAwareCodec Created by IntelliJ IDEA.