This is the complete list of members for
ReferenceGenome, including all inherited members.
cover(dnapos_t pos, char quality, int limit) | ReferenceGenome | |
cover(dnapos_t pos, unsigned int length, const std::string &quality, int limit) | ReferenceGenome | |
d_aCount | ReferenceGenome | |
d_cCount | ReferenceGenome | |
d_correctMappings | ReferenceGenome | |
d_gcMappings | ReferenceGenome | |
d_gCount | ReferenceGenome | |
d_insertCounts | ReferenceGenome | |
d_kmerMappings | ReferenceGenome | |
d_locimap | ReferenceGenome | |
d_mapping | ReferenceGenome | |
d_name | ReferenceGenome | |
d_taMappings | ReferenceGenome | |
d_tCount | ReferenceGenome | |
d_unmRegions | ReferenceGenome | |
d_wrongMappings | ReferenceGenome | |
getAllReadPosBoth(FastQRead *fq) | ReferenceGenome | |
getGCHisto() | ReferenceGenome | |
getMatchingFastQs(dnapos_t pos, StereoFASTQReader &fastq) | ReferenceGenome | |
getMatchingFastQs(dnapos_t start, dnapos_t stop, StereoFASTQReader &fastq) | ReferenceGenome | |
getMatchingHashes(const vector< uint32_t > &hashes) | ReferenceGenome | |
getReadPosBoth(FastQRead *fq, int qlimit) | ReferenceGenome | |
getReadPositions(const std::string &nucleotides) | ReferenceGenome | |
index(unsigned int length) | ReferenceGenome | |
locimap_t typedef | ReferenceGenome | |
mapFastQ(dnapos_t pos, const FastQRead &fqfrag, int indel=0) | ReferenceGenome | |
printCoverage(FILE *jsfp, const std::string &fname) | ReferenceGenome | |
ReferenceGenome(const string &fname) | ReferenceGenome | |
size() const | ReferenceGenome | [inline] |
snippet(dnapos_t start, dnapos_t stop) const | ReferenceGenome | |