libStatGen Software 1
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This class contains the match/mismatch information between the reference and a read for a single base. More...
#include <SamQuerySeqWithRefHelper.h>
Public Types | |
enum | Type { UNKNOWN , MATCH , MISMATCH } |
More types can be added later as needed. More... | |
Public Member Functions | |
Type | getType () |
Get the type (match/mismatch/unknown) for this object. More... | |
int32_t | getQueryIndex () |
Get the query index for this object. More... | |
void | setType (Type newType) |
Set the type (match/mismatch/unkown) for this object. More... | |
void | setQueryIndex (int32_t queryIndex) |
Set the query index for this object. More... | |
This class contains the match/mismatch information between the reference and a read for a single base.
Definition at line 28 of file SamQuerySeqWithRefHelper.h.
More types can be added later as needed.
Definition at line 32 of file SamQuerySeqWithRefHelper.h.
SamSingleBaseMatchInfo::SamSingleBaseMatchInfo | ( | ) |
Definition at line 206 of file SamQuerySeqWithRefHelper.cpp.
SamSingleBaseMatchInfo::~SamSingleBaseMatchInfo | ( | ) |
Definition at line 213 of file SamQuerySeqWithRefHelper.cpp.
int32_t SamSingleBaseMatchInfo::getQueryIndex | ( | ) |
Get the query index for this object.
Definition at line 224 of file SamQuerySeqWithRefHelper.cpp.
Referenced by SamFilter::clipOnMismatchThreshold(), and SamFilter::sumMismatchQuality().
SamSingleBaseMatchInfo::Type SamSingleBaseMatchInfo::getType | ( | ) |
Get the type (match/mismatch/unknown) for this object.
Definition at line 218 of file SamQuerySeqWithRefHelper.cpp.
Referenced by SamFilter::clipOnMismatchThreshold(), and SamFilter::sumMismatchQuality().
void SamSingleBaseMatchInfo::setQueryIndex | ( | int32_t | queryIndex | ) |
Set the query index for this object.
Definition at line 236 of file SamQuerySeqWithRefHelper.cpp.
Referenced by SamQuerySeqWithRefIter::getNextMatchMismatch().
void SamSingleBaseMatchInfo::setType | ( | Type | newType | ) |
Set the type (match/mismatch/unkown) for this object.
Definition at line 230 of file SamQuerySeqWithRefHelper.cpp.
Referenced by SamQuerySeqWithRefIter::getNextMatchMismatch().