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

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• add() : cgatools::junctions::JunctionFile , cgatools::util::FastRangeSet
• addCall() : cgatools::variants::PhasedAllele , cgatools::variants::Locus
• addCallOffset() : cgatools::variants::Allele
• addEvidenceRecords() : cgatools::mapping::MergedMap2SamConverter
• addField() : cgatools::util::DelimitedLineParser
• addFieldParsers() : cgatools::variants::Call
• addFilterFlag() : cgatools::junctions::JunctionVcfWriter
• addSequence() : cgatools::reference::CrrFileWriter , cgatools::variants::PhasedAllele
• addVarFilter() : cgatools::variants::Call
• addWholeReference() : cgatools::util::FastRangeSet
• adjustOffset() : cgatools::mapping::EvidenceDnbRecord
• ALL_HAPLOTYPES : cgatools::variants::Call
• Allele() : cgatools::variants::Allele
• allele() : cgatools::variants::PhasedAllele
• alleleFreq_ : cgatools::variants::Call
• alleleSeq_ : cgatools::variants::Call
• alternativeCalls_ : cgatools::variants::Call
• annotationHeaders_ : cgatools::junctions::JunctionFile
• annotations_ : cgatools::junctions::Junction
• appendSequence() : cgatools::reference::CompactDnaSequence
• appendUnambiguousSequence() : cgatools::reference::CompactDnaSequence
• assembledSequence_ : cgatools::junctions::Junction