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

- a -

• ABORT : ErrorHandler
• Add() : CigarRoller
• add() : NonOverlapRegionPos , NonOverlapRegions
• Add() : CigarRoller
• add() : SamCoordOutput , SamReferenceInfo
• addComment() : SamFileHeader
• addEntry() : PileupElement , PileupElementBaseQual
• addError() : GlfStatus , SamValidationErrors , StatGenStatus
• addHD() : SamFileHeader
• addHeader() : SamFileHeader
• addHeaderLine() : SamFileHeader
• addIntTag() : SamRecord
• addKey() : SamHeaderRecord
• addPG() : SamFileHeader
• addPosition() : PosList
• addRecordCopy() : SamFileHeader
• addRG() : SamFileHeader
• addSQ() : SamFileHeader
• addTag() : SamRecord
• Align() : GreedyTupleAligner< QueryType, ReferenceType, ReferenceIndex >
• analyze() : PileupElementBaseQual , TestPileupElement , PileupElement
• appendCommentLines() : SamFileHeader
• appendString() : SamHeaderRecord
• areEqual() : BaseUtilities