Class Hierarchy

Go to the graphical class hierarchy

This inheritance list is sorted roughly, but not completely, alphabetically:

Alleles

AnalyzeClass

BamIndex

bamRecordStruct

BaseAsciiMap

BaseComposition

BaseCount

baseQualityConvertor

BaseUtilities

BasicHash

BGZF

cache_t

CharBuffer

Chromosome

ChromosomeInfo

Chunk

Cigar

CigarRoller

Cigar::CigarOperator

CigarRollerTest

ColumnExtras

defaultPileup< PILEUP_TYPE >

defaultPileup< PileupElementBaseQual >

EqualsTest

ErrorHandler

Family

FastQFile

FastQStatus

FileType

BgzfFileType

BgzfFileTypeRecovery

UncompressedFileType

FilterTest

FortranFormat

GenericSamInterface

BamInterface

SamInterface

GenotypeList

glfEntry

GlfException

GlfFile

GlfFileReader

GlfFileWriter

glfHandler

GlfHeader

glfIndel

GlfRecord

GlfRefSection

GlfStatus

GlobalTestEnvironment

GreedyTupleAligner< QueryType, ReferenceType, ReferenceIndex >

GzipHeader

BGZFHeader

InputFile

IntArray

QuickIndex

IntHash

knetFile_s

LongHash< ObjectT >

LongHash< int >

LongCounter

LongParameterList

MarkerInfo

Matrix

MemoryMap

MemoryMapArray< elementT, indexT, cookieVal, versionVal, accessorFunc, setterFunc, elementCount2BytesFunc, arrayHeaderClass >

GenomeSequence

MemoryMapArrayHeader

genomeSequenceMmapHeader

MemoryMapGenericHeader

emptyGenericHeader

MiniDeflate

MockGenomeSequence

modify

modifyVar

OptionList

PackedRead

Parameter

DoubleParameter

HiddenDouble

IntParameter

HiddenInteger

ListParameter

LongParameters

SetParameter

StringParameter

HiddenString

SwitchParameter

HiddenSwitch

ParameterList

PedigreeGlobals

Pedigree

PedigreeDescription

Person

PedigreeKey

PeekaheadBuffer

BGZFReader

FileReader

Pileup< PILEUP_TYPE, FUNC_CLASS >

Pileup< PileupElementBaseQual >

TestPileup

PileupElement

PileupElementBaseQual

Random

ReadBase

ReadInsertion

RunningStat

SamFile

BamIndexFileTest

SamFileReader

SamFileWriter

SamFileHeader

SamFilter

SamFlag

SamHeaderRecord

SamHeaderHD

SamHeaderPG

SamHeaderRG

SamHeaderSQ

SamHeaderTag

SamQuerySeqWithRef

SamQuerySeqWithRefIter

SamRecord

SamReferenceInfo

SamSingleBaseMatchInfo

SamStatistics

SamStatus

SamTags

SamValidationError

SamValidationErrors

SamValidator

SequenceCoverageReader

ShiftIndelsTest

SmithWaterman< maxReadLengthH, maxReferenceLengthH, HCellType, Atype, Btype, QualityType, readIndexType, referenceIndexType >

SortedChunkList

String

StringAlias

StringArray

StringDoubleHash

StringHash

StringIntHash

StringIntMap

StringMap

TestWrite

Validate

Vector

VectorFunc

Weight

SmithWaterman< maxReadLengthH, maxReferenceLengthH, HCellType, Atype, Btype, QualityType, readIndexType, referenceIndexType >::weight