| AlignmentsBeginOffset | BamTools::BamReader::BamReaderPrivate | |
| BamReaderPrivate(void) | BamTools::BamReader::BamReaderPrivate | |
| BinsFromRegion(int refID, int left, uint16_t[MAX_BIN]) | BamTools::BamReader::BamReaderPrivate | |
| BuildIndex(void) | BamTools::BamReader::BamReaderPrivate | |
| CalculateAlignmentEnd(const int &position, const std::vector< CigarOp > &cigarData) | BamTools::BamReader::BamReaderPrivate | |
| CIGAR_LOOKUP | BamTools::BamReader::BamReaderPrivate | |
| ClearIndex(void) | BamTools::BamReader::BamReaderPrivate | |
| Close(void) | BamTools::BamReader::BamReaderPrivate | |
| CreateIndex(void) | BamTools::BamReader::BamReaderPrivate | |
| CurrentLeft | BamTools::BamReader::BamReaderPrivate | |
| CurrentRefID | BamTools::BamReader::BamReaderPrivate | |
| DNA_LOOKUP | BamTools::BamReader::BamReaderPrivate | |
| Filename | BamTools::BamReader::BamReaderPrivate | |
| GetHeaderText(void) const | BamTools::BamReader::BamReaderPrivate | |
| GetNextAlignment(BamAlignment &bAlignment) | BamTools::BamReader::BamReaderPrivate | |
| GetOffset(int refID, int left) | BamTools::BamReader::BamReaderPrivate | |
| GetReferenceCount(void) const | BamTools::BamReader::BamReaderPrivate | |
| GetReferenceData(void) const | BamTools::BamReader::BamReaderPrivate | |
| GetReferenceID(const string &refName) const | BamTools::BamReader::BamReaderPrivate | |
| HeaderText | BamTools::BamReader::BamReaderPrivate | |
| Index | BamTools::BamReader::BamReaderPrivate | |
| IndexFilename | BamTools::BamReader::BamReaderPrivate | |
| InsertBinEntry(BamBinMap &binMap, const uint32_t &saveBin, const uint64_t &saveOffset, const uint64_t &lastOffset) | BamTools::BamReader::BamReaderPrivate | |
| InsertLinearOffset(LinearOffsetVector &offsets, const BamAlignment &bAlignment, const uint64_t &lastOffset) | BamTools::BamReader::BamReaderPrivate | |
| IsIndexLoaded | BamTools::BamReader::BamReaderPrivate | |
| IsOverlap(BamAlignment &bAlignment) | BamTools::BamReader::BamReaderPrivate | |
| IsRegionSpecified | BamTools::BamReader::BamReaderPrivate | |
| Jump(int refID, int position=0) | BamTools::BamReader::BamReaderPrivate | |
| LoadHeaderData(void) | BamTools::BamReader::BamReaderPrivate | |
| LoadIndex(void) | BamTools::BamReader::BamReaderPrivate | |
| LoadNextAlignment(BamAlignment &bAlignment) | BamTools::BamReader::BamReaderPrivate | |
| LoadReferenceData(void) | BamTools::BamReader::BamReaderPrivate | |
| mBGZF | BamTools::BamReader::BamReaderPrivate | |
| MergeChunks(void) | BamTools::BamReader::BamReaderPrivate | |
| Open(const string &filename, const string &indexFilename="") | BamTools::BamReader::BamReaderPrivate | |
| References | BamTools::BamReader::BamReaderPrivate | |
| Rewind(void) | BamTools::BamReader::BamReaderPrivate | |
| Roundup32(int &value) | BamTools::BamReader::BamReaderPrivate | |
| WriteIndex(void) | BamTools::BamReader::BamReaderPrivate | |
| ~BamReaderPrivate(void) | BamTools::BamReader::BamReaderPrivate | |
1.8.4