BamTools 2.5.2
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::BamAlignment
AddTag(const std::string &tag, const std::vector< T > &values)BamTools::BamAlignment
AlignedBasesBamTools::BamAlignment
AlignmentFlagBamTools::BamAlignment
BamAlignment()BamTools::BamAlignment
BinBamTools::BamAlignment
BuildCharData()BamTools::BamAlignment
CigarDataBamTools::BamAlignment
EditTag(const std::string &tag, const std::string &type, const T &value)BamTools::BamAlignment
EditTag(const std::string &tag, const std::vector< T > &values)BamTools::BamAlignment
FilenameBamTools::BamAlignment
GetArrayTagType(const std::string &tag, char &type) constBamTools::BamAlignment
GetEndPosition(bool usePadded=false, bool closedInterval=false) constBamTools::BamAlignment
GetErrorString() 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::BamAlignment
GetTag(const std::string &tag, std::vector< T > &destination) constBamTools::BamAlignment
GetTagNames() constBamTools::BamAlignment
GetTagType(const std::string &tag, char &type) constBamTools::BamAlignment
HasTag(const std::string &tag) constBamTools::BamAlignment
InsertSizeBamTools::BamAlignment
Internal::BamReaderPrivateBamTools::BamAlignmentfriend
Internal::BamWriterPrivateBamTools::BamAlignmentfriend
IsDuplicate() constBamTools::BamAlignment
IsFailedQC() constBamTools::BamAlignment
IsFirstMate() constBamTools::BamAlignment
IsMapped() constBamTools::BamAlignment
IsMateMapped() constBamTools::BamAlignment
IsMateReverseStrand() constBamTools::BamAlignment
IsPaired() constBamTools::BamAlignment
IsPrimaryAlignment() constBamTools::BamAlignment
IsProperPair() constBamTools::BamAlignment
IsReverseStrand() constBamTools::BamAlignment
IsSecondMate() constBamTools::BamAlignment
IsSupplementary() 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