, including all inherited members.
| alternatives_ (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| BASE_MAPPING enum value (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| chr_ (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| ConstSamRecords typedef (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| correctPosition(const reference::CrrFile &reference) (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| DEFAULT enum value (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| EVIDENCE enum value (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| EVIDENCE_CACHE enum value (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| extCigar_ (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| fullReadScores_ (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| fullReadSequence_ (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| getMappingQuality() const (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | [inline] |
| isArtificialMateReported() const (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | [inline] |
| isArtificialMateReported_ (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | [protected] |
| isConsistent() const (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | [inline] |
| isConsistentMapQ_ (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | [protected] |
| isGroupPrimary_ (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| isMapped_ (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| isPrimary_ (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| isSvCandidate_ (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| mappingQuality_ (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | [protected] |
| mates_ (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| onNegativeStrand_ (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| operator<< (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | [friend] |
| position_ (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| readName_ (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| RecordType enum name (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| SamRecord(const std::string &readName, bool isMapped, bool onNegativeStrand, bool isPrimary, uint8_t side, uint16_t chr, int32_t position, const std::string &extCigar, uint8_t mappingQuality, bool isConsistentMapQ, const std::string &fullReadSequence, const std::string &fullReadScores, UInt16Pair sequenceStartAndLength) (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| SamRecords typedef (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| sequenceStartAndLength_ (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| setArtificialMateReported(bool isReported) (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | [inline] |
| setMappingQuality(uint8_t value, bool isConsistent) (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | [inline] |
| side_ (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| typeId_ (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | |
| ~SamRecord() (defined in cgatools::mapping::SamRecord) | cgatools::mapping::SamRecord | [inline, virtual] |
1.6.2
