libStatGen Software  1
BamIndex Member List

This is the complete list of members for BamIndex, including all inherited members.

BamIndex() (defined in BamIndex)BamIndex
getBinsForRegion(uint32_t start, uint32_t end, bool binMap[MAX_NUM_BINS+1]) (defined in IndexBase)IndexBaseprotectedstatic
getChunksForRegion(int32_t refID, int32_t start, int32_t end, SortedChunkList &chunkList)BamIndex
getMaxOffset() const (defined in BamIndex)BamIndex
getMinOffsetFromLinearIndex(int32_t refID, uint32_t position, uint64_t &minOffset) const (defined in IndexBase)IndexBase
getNumMappedReads(int32_t refID)BamIndex
getNumRefs() constIndexBase
getNumUnMappedReads(int32_t refID)BamIndex
getReferenceMinMax(int32_t refID, uint64_t &minOffset, uint64_t &maxOffset) constBamIndex
IndexBase() (defined in IndexBase)IndexBase
LINEAR_INDEX_SHIFT (defined in IndexBase)IndexBaseprotectedstatic
MAX_NUM_BINS (defined in IndexBase)IndexBaseprotectedstatic
MAX_POSITION (defined in IndexBase)IndexBaseprotectedstatic
myRefs (defined in IndexBase)IndexBaseprotected
n_ref (defined in IndexBase)IndexBaseprotected
printIndex(int32_t refID, bool summary=false)BamIndex
readIndex(const char *filename)BamIndexvirtual
REF_ID_ALLBamIndexstatic
REF_ID_UNMAPPEDBamIndexstatic
resetIndex()BamIndexvirtual
UNKNOWN_NUM_READSBamIndexstatic
~BamIndex() (defined in BamIndex)BamIndexvirtual
~IndexBase() (defined in IndexBase)IndexBasevirtual