BamTools  2.4.1
BamTools::BamAlignment Member List

This is the complete list of members for BamTools::BamAlignment, including all inherited members.

AddTag(const std::string &tag, const std::string &type, const T &value)BamTools::BamAlignmentinline
AddTag(const std::string &tag, const std::vector< T > &values)BamTools::BamAlignmentinline
AlignedBasesBamTools::BamAlignment
AlignmentFlagBamTools::BamAlignment
BamAlignment(void)BamTools::BamAlignment
BamAlignment(const BamAlignment &other)BamTools::BamAlignment
BinBamTools::BamAlignment
BuildCharData(void)BamTools::BamAlignment
CigarDataBamTools::BamAlignment
EditTag(const std::string &tag, const std::string &type, const T &value)BamTools::BamAlignmentinline
EditTag(const std::string &tag, const std::vector< T > &values)BamTools::BamAlignmentinline
FilenameBamTools::BamAlignment
GetArrayTagType(const std::string &tag, char &type) constBamTools::BamAlignment
GetEndPosition(bool usePadded=false, bool closedInterval=false) constBamTools::BamAlignment
GetErrorString(void) constBamTools::BamAlignment
GetSoftClips(std::vector< int > &clipSizes, std::vector< int > &readPositions, std::vector< int > &genomePositions, bool usePadded=false) constBamTools::BamAlignment
GetTag(const std::string &tag, T &destination) constBamTools::BamAlignmentinline
GetTag(const std::string &tag, std::vector< T > &destination) constBamTools::BamAlignmentinline
GetTagNames(void) constBamTools::BamAlignment
GetTagType(const std::string &tag, char &type) constBamTools::BamAlignment
HasTag(const std::string &tag) constBamTools::BamAlignment
InsertSizeBamTools::BamAlignment
Internal::BamReaderPrivate classBamTools::BamAlignmentfriend
Internal::BamWriterPrivate classBamTools::BamAlignmentfriend
IsDuplicate(void) constBamTools::BamAlignment
IsFailedQC(void) constBamTools::BamAlignment
IsFirstMate(void) constBamTools::BamAlignment
IsMapped(void) constBamTools::BamAlignment
IsMateMapped(void) constBamTools::BamAlignment
IsMateReverseStrand(void) constBamTools::BamAlignment
IsPaired(void) constBamTools::BamAlignment
IsPrimaryAlignment(void) constBamTools::BamAlignment
IsProperPair(void) constBamTools::BamAlignment
IsReverseStrand(void) constBamTools::BamAlignment
IsSecondMate(void) constBamTools::BamAlignment
LengthBamTools::BamAlignment
MapQualityBamTools::BamAlignment
MatePositionBamTools::BamAlignment
MateRefIDBamTools::BamAlignment
NameBamTools::BamAlignment
PositionBamTools::BamAlignment
QualitiesBamTools::BamAlignment
QueryBasesBamTools::BamAlignment
RefIDBamTools::BamAlignment
RemoveTag(const std::string &tag)BamTools::BamAlignment
SetIsDuplicate(bool ok)BamTools::BamAlignment
SetIsFailedQC(bool ok)BamTools::BamAlignment
SetIsFirstMate(bool ok)BamTools::BamAlignment
SetIsMapped(bool ok)BamTools::BamAlignment
SetIsMateMapped(bool ok)BamTools::BamAlignment
SetIsMateReverseStrand(bool ok)BamTools::BamAlignment
SetIsPaired(bool ok)BamTools::BamAlignment
SetIsPrimaryAlignment(bool ok)BamTools::BamAlignment
SetIsProperPair(bool ok)BamTools::BamAlignment
SetIsReverseStrand(bool ok)BamTools::BamAlignment
SetIsSecondMate(bool ok)BamTools::BamAlignment
TagDataBamTools::BamAlignment
~BamAlignment(void)BamTools::BamAlignment