#Htsjdk.samtools.cram.encoding Classes and Interfaces

_{#Htsjdk.samtools.cram.encoding Classes and Interfaces - 50 results found.}

Name	Description	Type	Package	Framework
AbstractBitCodec		Class	htsjdk.samtools.cram.encoding	HtsJDK
AbstractReader		Class	htsjdk.samtools.cram.encoding.reader	HtsJDK
BaseQualityScore	A read feature representing a single quality score in a read.	Class	htsjdk.samtools.cram.encoding.readfeatures	HtsJDK
Bases		Class	htsjdk.samtools.cram.encoding.readfeatures	HtsJDK
BetaIntegerEncoding		Class	htsjdk.samtools.cram.encoding	HtsJDK
BitCodec	An interface that defines requirements for serializing/deserializing objects into and from a bit stream.	Interface	htsjdk.samtools.cram.encoding	HtsJDK
ByteArrayLenEncoding		Class	htsjdk.samtools.cram.encoding	HtsJDK
ByteArrayStopEncoding		Class	htsjdk.samtools.cram.encoding	HtsJDK
ByteArrayStopEncoding .ByteArrayStopCodec		Class	htsjdk.samtools.cram.encoding	HtsJDK
CramRecordReader		Class	htsjdk.samtools.cram.encoding.reader	HtsJDK
DataReader	A basic interface for reading data.	Interface	htsjdk.samtools.cram.encoding.reader	HtsJDK
DataReaderFactory		Class	htsjdk.samtools.cram.encoding.reader	HtsJDK
DataReaderFactory .DataReaderWithStats		Class	htsjdk.samtools.cram.encoding.reader	HtsJDK
DataSeries	An annotation to denote a data series field in a java class.	Class	htsjdk.samtools.cram.encoding	HtsJDK
DataSeriesMap		Class	htsjdk.samtools.cram.encoding	HtsJDK
DataSeriesType	Data series types known to CRAM.	Class	htsjdk.samtools.cram.encoding	HtsJDK
DataWriter	A basic interface defining a writer.	Interface	htsjdk.samtools.cram.encoding.writer	HtsJDK
DataWriterFactory		Class	htsjdk.samtools.cram.encoding.writer	HtsJDK
Deletion	A read feature representing a deletion of one or more bases similar to CigarOperator.	Class	htsjdk.samtools.cram.encoding.readfeatures	HtsJDK
Encoding	An interface to describe how a data series is encoded.	Interface	htsjdk.samtools.cram.encoding	HtsJDK
EncodingFactory	A helper class to instantiate an appropriate Encoding for a given DataSeriesType and	Class	htsjdk.samtools.cram.encoding	HtsJDK
ExternalByteArrayEncoding		Class	htsjdk.samtools.cram.encoding	HtsJDK
ExternalByteEncoding		Class	htsjdk.samtools.cram.encoding	HtsJDK
ExternalCompressor		Class	htsjdk.samtools.cram.encoding	HtsJDK
ExternalIntegerEncoding		Class	htsjdk.samtools.cram.encoding	HtsJDK
ExternalLongEncoding		Class	htsjdk.samtools.cram.encoding	HtsJDK
GammaIntegerEncoding		Class	htsjdk.samtools.cram.encoding	HtsJDK
GolombIntegerEncoding		Class	htsjdk.samtools.cram.encoding	HtsJDK
GolombLongEncoding		Class	htsjdk.samtools.cram.encoding	HtsJDK
GolombRiceIntegerEncoding		Class	htsjdk.samtools.cram.encoding	HtsJDK
HardClip	A read feature representing a hard clip similar to CigarOperator.	Class	htsjdk.samtools.cram.encoding.readfeatures	HtsJDK
HuffmanByteEncoding		Class	htsjdk.samtools.cram.encoding.huffman.codec	HtsJDK
HuffmanCode		Class	htsjdk.samtools.cram.encoding.huffman	HtsJDK
HuffmanIntegerEncoding		Class	htsjdk.samtools.cram.encoding.huffman.codec	HtsJDK
HuffmanTree		Class	htsjdk.samtools.cram.encoding.huffman	HtsJDK
InsertBase	A read feature representing a single insert base.	Class	htsjdk.samtools.cram.encoding.readfeatures	HtsJDK
Insertion	A read feature representing a multi-base insertion.	Class	htsjdk.samtools.cram.encoding.readfeatures	HtsJDK
NullEncoding		Class	htsjdk.samtools.cram.encoding	HtsJDK
Padding	A read feature representing padding, similar to CigarOperator.	Class	htsjdk.samtools.cram.encoding.readfeatures	HtsJDK
RANS		Class	htsjdk.samtools.cram.encoding.rans	HtsJDK
RANS .ORDER	Returns the enum constant of this type with the specified name.	Class	htsjdk.samtools.cram.encoding.rans	HtsJDK
ReadBase	A read feature representing a single base with associated quality score.	Class	htsjdk.samtools.cram.encoding.readfeatures	HtsJDK
ReadFeature	An interface to capture data in read coordinates.	Interface	htsjdk.samtools.cram.encoding.readfeatures	HtsJDK
RefSeqIdReader	A reader that only keeps track of alignment spans.	Class	htsjdk.samtools.cram.encoding.reader	HtsJDK
RefSkip	A read feature representing a reference skip similar to CigarOperator.	Class	htsjdk.samtools.cram.encoding.readfeatures	HtsJDK
Scores	A read feature representing a contiguous stretch of quality scores in a read.	Class	htsjdk.samtools.cram.encoding.readfeatures	HtsJDK
SoftClip	A read feature representing a soft clip similar to CigarOperator.	Class	htsjdk.samtools.cram.encoding.readfeatures	HtsJDK
SubexponentialIntegerEncoding		Class	htsjdk.samtools.cram.encoding	HtsJDK
Substitution	A substitution event captured in read coordinates.	Class	htsjdk.samtools.cram.encoding.readfeatures	HtsJDK
Writer		Class	htsjdk.samtools.cram.encoding.writer	HtsJDK

Search Java Classes and Packages