, including all inherited members.
addComment(const char *comment) (defined in SamFileHeader) | SamFileHeader | |
addHD(SamHeaderHD *hd) (defined in SamFileHeader) | SamFileHeader | |
addHeaderLine(const char *type, const char *tag, const char *value) (defined in SamFileHeader) | SamFileHeader | |
addHeaderLine(const char *headerLine) (defined in SamFileHeader) | SamFileHeader | |
addPG(SamHeaderPG *pg) (defined in SamFileHeader) | SamFileHeader | |
addReferenceInfo(const char *referenceSequenceName, int32_t referenceSequenceLength) (defined in SamFileHeader) | SamFileHeader | |
addRG(SamHeaderRG *rg) (defined in SamFileHeader) | SamFileHeader | |
addSQ(SamHeaderSQ *sq) (defined in SamFileHeader) | SamFileHeader | |
copy(const SamFileHeader &header) (defined in SamFileHeader) | SamFileHeader | |
generateReferenceInfo() (defined in SamFileHeader) | SamFileHeader | |
getHD() (defined in SamFileHeader) | SamFileHeader | |
getHDTagValue(const char *tag) (defined in SamFileHeader) | SamFileHeader | |
getHeaderString(std::string &header) const (defined in SamFileHeader) | SamFileHeader | |
getNextComment() (defined in SamFileHeader) | SamFileHeader | |
getNextHeaderLine(std::string &headerLine) (defined in SamFileHeader) | SamFileHeader | |
getNextHeaderRecord(uint32_t &index, SamHeaderRecord::SamHeaderRecordType headerType) (defined in SamFileHeader) | SamFileHeader | |
getNextHeaderRecord() (defined in SamFileHeader) | SamFileHeader | |
getNextPGRecord() (defined in SamFileHeader) | SamFileHeader | |
getNextRGRecord() (defined in SamFileHeader) | SamFileHeader | |
getNextSQRecord() (defined in SamFileHeader) | SamFileHeader | |
getNumPGs() (defined in SamFileHeader) | SamFileHeader | |
getNumRGs() (defined in SamFileHeader) | SamFileHeader | |
getNumSQs() (defined in SamFileHeader) | SamFileHeader | |
getPG(const char *id) (defined in SamFileHeader) | SamFileHeader | |
getPGTagValue(const char *tag, const char *id) (defined in SamFileHeader) | SamFileHeader | |
getReferenceID(const String &referenceName) (defined in SamFileHeader) | SamFileHeader | |
getReferenceID(const char *referenceName) (defined in SamFileHeader) | SamFileHeader | |
getReferenceInfo() const (defined in SamFileHeader) | SamFileHeader | |
getReferenceLabel(int id) const (defined in SamFileHeader) | SamFileHeader | |
getRG(const char *id) (defined in SamFileHeader) | SamFileHeader | |
getRGTagValue(const char *tag, const char *id) (defined in SamFileHeader) | SamFileHeader | |
getSortOrder() (defined in SamFileHeader) | SamFileHeader | |
getSQ(const char *name) (defined in SamFileHeader) | SamFileHeader | |
getSQTagValue(const char *tag, const char *name) (defined in SamFileHeader) | SamFileHeader | |
getTagSO() (defined in SamFileHeader) | SamFileHeader | |
operator=(const SamFileHeader &header) (defined in SamFileHeader) | SamFileHeader | |
removeHD() (defined in SamFileHeader) | SamFileHeader | |
removePG(const char *id) (defined in SamFileHeader) | SamFileHeader | |
removeRG(const char *id) (defined in SamFileHeader) | SamFileHeader | |
removeSQ(const char *name) (defined in SamFileHeader) | SamFileHeader | |
resetCommentIter() (defined in SamFileHeader) | SamFileHeader | |
resetHeader() (defined in SamFileHeader) | SamFileHeader | |
resetHeaderRecordIter() (defined in SamFileHeader) | SamFileHeader | |
resetPGRecordIter() (defined in SamFileHeader) | SamFileHeader | |
resetRGRecordIter() (defined in SamFileHeader) | SamFileHeader | |
resetSQRecordIter() (defined in SamFileHeader) | SamFileHeader | |
SamFileHeader() (defined in SamFileHeader) | SamFileHeader | |
SamFileHeader(const SamFileHeader &header) (defined in SamFileHeader) | SamFileHeader | |
setHDTag(const char *tag, const char *value) (defined in SamFileHeader) | SamFileHeader | |
setHeaderFromBamFile(IFILE filePtr) (defined in SamFileHeader) | SamFileHeader | |
setPGTag(const char *tag, const char *value, const char *id) (defined in SamFileHeader) | SamFileHeader | |
setRGTag(const char *tag, const char *value, const char *id) (defined in SamFileHeader) | SamFileHeader | |
setSQTag(const char *tag, const char *value, const char *name) (defined in SamFileHeader) | SamFileHeader | |
~SamFileHeader() (defined in SamFileHeader) | SamFileHeader | |