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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) | IndexBase | protected static
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() const | IndexBase |
getNumUnMappedReads(int32_t refID) | BamIndex |
getReferenceMinMax(int32_t refID, uint64_t &minOffset, uint64_t &maxOffset) const | BamIndex |
IndexBase() (defined in IndexBase) | IndexBase |
LINEAR_INDEX_SHIFT (defined in IndexBase) | IndexBase | protected static
MAX_NUM_BINS (defined in IndexBase) | IndexBase | protected static
MAX_POSITION (defined in IndexBase) | IndexBase | protected static
myRefs (defined in IndexBase) | IndexBase | protected
n_ref (defined in IndexBase) | IndexBase | protected
printIndex(int32_t refID, bool summary=false) | BamIndex |
readIndex(const char *filename) | BamIndex | virtual
REF_ID_ALL | BamIndex | static
REF_ID_UNMAPPED | BamIndex | static
resetIndex() | BamIndex | virtual
UNKNOWN_NUM_READS | BamIndex | static
~BamIndex() (defined in BamIndex) | BamIndex | virtual
~IndexBase() (defined in IndexBase) | IndexBase | virtual