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Here is a list of all documented class members with links to the class documentation for each member:

### - g -

- GenerateStatistics() : SamFile
- GenomeSequence() : GenomeSequence
- genSamTagsString() : SamRecordHelper
- genSamTagString() : SamRecordHelper
- get() : ReusableVector< DATA_TYPE >
- get0BasedAlignmentEnd() : SamRecord
- get0BasedMatePosition() : SamRecord
- get0BasedPosition() : SamRecord
- get0BasedUnclippedEnd() : SamRecord
- get0BasedUnclippedStart() : SamRecord
- get1BasedAlignmentEnd() : SamRecord
- get1BasedMatePosition() : SamRecord
- get1BasedPosition() : SamRecord
- get1BasedUnclippedEnd() : SamRecord
- get1BasedUnclippedStart() : SamRecord
- getAlignmentLength() : SamRecord
- getAsciiQuality() : BaseUtilities
- GetBamIndex() : SamFile
- getBase() : GenomeSequence
- getBaseIndex() : BaseAsciiMap
- getBin() : SamRecord
- getBlockSize() : SamRecord
- getChar() : Cigar::CigarOperator
- getChromosome() : GenomeSequence, PileupElement
- getChromosomeCount() : GenomeSequence
- getChromosomeSize() : GenomeSequence
- getChromosomeStart() : GenomeSequence
- getChunksForRegion() : BamIndex
- getCigar() : SamRecord
- getCigarCharOp() : Cigar
- getCigarCharOpFromQueryIndex() : Cigar
- getCigarCharOpFromRefOffset() : Cigar
- getCigarCharOpFromRefPos() : Cigar
- getCigarInfo() : SamRecord
- getCigarLength() : SamRecord
- getCigarString() : Cigar
- GetCurrentPosition() : SamFile
- getCurrentRecordCount() : GlfFile
- GetCurrentRecordCount() : SamFile
- getDataPtr() : GenomeSequence
- getErrorMessage() : SamFileHeader
- getErrorString() : SamValidationError, SamValidationErrors
- getExpandedCigarIndexFromQueryIndex() : Cigar
- getExpandedCigarIndexFromRefOffset() : Cigar
- getExpandedCigarIndexFromRefPos() : Cigar
- getExpandedString() : Cigar
- getExpectedQueryBaseCount() : Cigar
- getExpectedReferenceBaseCount() : Cigar
- getFailure() : GlfFile
- GetFailure() : SamFile
- getFields() : SamRecord
- getFileName() : InputFile
- getFlag() : SamRecord
- getFloatTag() : SamRecord
- getGenomePosition() : GenomeSequence
- getHD() : SamFileHeader
- getHDTagValue() : SamFileHeader
- getHeaderString() : SamFileHeader
- getHeaderTextString() : GlfHeader
- getIndel1() : GlfRecord
- getIndel2() : GlfRecord
- getInsertSize() : SamRecord
- getInteger() : SamRecord
- getIntegerTag() : SamRecord
- getKeyValue() : SamHeaderRecord
- getLk() : GlfRecord
- getLkHet() : GlfRecord
- getLkHom1() : GlfRecord
- getLkHom2() : GlfRecord
- getMapQuality() : SamRecord
- getMatchPositionOffset() : CigarRoller
- getMateReferenceID() : SamRecord
- getMateReferenceName() : SamRecord
- getMateReferenceNameOrEqual() : SamRecord
- getMessage() : SamValidationError
- getMinDepth() : GlfRecord
- getMinLk() : GlfRecord
- getMismatchCount() : GenomeSequence
- getName() : GlfRefSection
- getNextComment() : SamFileHeader
- getNextEmpty() : ReusableVector< DATA_TYPE >
- getNextError() : SamValidationErrors
- getNextHeaderLine() : SamFileHeader
- getNextHeaderRecord() : SamFileHeader
- getNextMatchMismatch() : SamQuerySeqWithRefIter
- getNextPGRecord() : SamFileHeader
- getNextRecord() : GlfFile
- getNextRefSection() : GlfFile
- getNextRGRecord() : SamFileHeader
- getNextSamTag() : SamRecord
- getNextSQRecord() : SamFileHeader
- getNumBeginClips() : Cigar
- getNumberBases() : GenomeSequence
- getNumEndClips() : Cigar
- getNumEntries() : SamReferenceInfo
- getNumMappedReads() : BamIndex
- getNumMappedReadsFromIndex() : SamFile
- getNumOverlaps() : Cigar
- GetNumOverlaps() : SamFile
- getNumOverlaps() : SamRecord
- getNumPGs() : SamFileHeader
- getNumRefs() : IndexBase
- getNumRGs() : SamFileHeader
- getNumSQs() : SamFileHeader
- getNumUnMappedReads() : BamIndex
- getNumUnMappedReadsFromIndex() : SamFile
- getOffset() : GlfRecord
- getOperator() : Cigar
- getPG() : SamFileHeader
- getPGTagValue() : SamFileHeader
- getPhredBaseQuality() : BaseUtilities
- getQuality() : SamRecord
- getQueryIndex() : Cigar, SamSingleBaseMatchInfo
- getReadDepth() : GlfRecord
- getReadLength() : SamRecord
- getReadName() : SamRecord
- getReadNameLength() : SamRecord
- getRecord() : SamRecordPool
- getRecordBuffer() : SamRecord
- getRecordType() : GlfRecord
- getRefBase() : GlfRecord, PileupElement
- getRefBaseChar() : GlfRecord
- getReference() : PileupElement, SamRecord
- getReferenceID() : SamFileHeader, SamRecord, SamReferenceInfo
- getReferenceInfo() : SamFileHeader
- getReferenceLabel() : SamFileHeader, SamReferenceInfo
- getReferenceLength() : SamReferenceInfo
- getReferenceMinMax() : BamIndex
- getReferenceName() : SamRecord, SamReferenceInfo
- getRefLen() : GlfRefSection
- getRefName() : Tabix
- getRefOffset() : Cigar
- getRefPosition() : Cigar, PileupElement
- getRG() : SamFileHeader
- getRGTagValue() : SamFileHeader
- getRmsMapQ() : GlfRecord
- getSequence() : SamRecord
- getSeverity() : SamValidationError
- getSeverityString() : SamValidationError
- getSortOrder() : SamFileHeader
- getSpaceType() : BaseAsciiMap, BaseComposition, FastQFile
- getSQ() : SamFileHeader
- getSQTagValue() : SamFileHeader
- getStartPos() : Tabix
- getStatus() : GlfFile, GlfStatus
- GetStatus() : SamFile
- getStatus() : SamRecord, StatGenStatus
- getStatusMessage() : GlfFile, GlfStatus
- GetStatusMessage() : SamFile
- getStatusMessage() : StatGenStatus
- getStatusString() : FastQStatus, GlfStatus, StatGenStatus
- getString() : CigarRoller, SamRecord
- getStringTag() : SamRecord
- getSumQ() : GenomeSequence
- getTagLength() : SamRecord
- getTagSO() : SamFileHeader
- getTagsString() : SamRecord
- getTagValue() : SamHeaderRecord
- getType() : SamHeaderRecord, SamSingleBaseMatchInfo, SamValidationError
- getTypeString() : SamHeaderRecord, SamValidationError
- GlfException() : GlfException
- GlfFile() : GlfFile
- GlfFileReader() : GlfFileReader
- GlfFileWriter() : GlfFileWriter
- GlfHeader() : GlfHeader
- GlfRecord() : GlfRecord
- GlfRefSection() : GlfRefSection
- GlfStatus() : GlfStatus
- GZIP : InputFile