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

CharBuffer

ChromosomeInfo

Chunk

Cigar

CigarRoller

Cigar::CigarOperator

CigarRollerTest

ColumnExtras

defaultPileup< PILEUP_TYPE >

ErrorHandler

Family

FastQ

FastQFile

FastQStatus

FileType

BgzfFileType

UncompressedFileType

FortranFormat

GenericSamInterface

BamInterface

SamInterface

GenotypeList

glfEntry

GlfException

GlfFile

GlfFileReader

GlfFileWriter

glfHandler

GlfHeader

glfIndel

GlfRecord

GlfRefSection

GlfStatus

GlobalTestEnvironment

GreedyTupleAligner< QueryType, ReferenceType, ReferenceIndex >

GzipHeader

InputFile

IntArray

QuickIndex

IntHash

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

Pileup< PILEUP_TYPE, FUNC_CLASS >

PileupElement

PileupElementBaseQual

Random

ReadBase

ReadInsertion

RunningStat

SamFile

SamFileReader

SamFileWriter

SamFileHeader

SamFilter

SamFlag

SamHeaderRecord

SamHeaderHD

SamHeaderPG

SamHeaderRG

SamHeaderSQ

SamHeaderTag

SamQuerySeqWithRefIter

SamRecord

SamReferenceInfo

SamSingleBaseMatchInfo

SamStatistics

SamStatus

SamValidationError

SamValidationErrors

SamValidator

SequenceCoverageReader

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

SortedChunkList

String

StringArray

StringDoubleHash

StringHash

StringIntHash

StringIntMap

StringMap

TestWrite

Vector

VectorFunc

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

Weight