Index

B

BedReader (C++ class) BedReader::BedReader (C++ function) BedReader::read_bed3_file (C++ function)

BedReader::read_bed3_line (C++ function) BedReader::read_bed_line (C++ function) BedReader::~BedReader (C++ function)

F

FastqReader (C++ class) FastqReader::FastqReader (C++ function), [1]

FastqReader::read_pe_entry (C++ function) FastqReader::read_se_entry (C++ function) FastqReader::~FastqReader (C++ function)

G

GenomicStepVector (C++ class) GenomicStepVector::add (C++ function), [1] GenomicStepVector::at (C++ function), [1], [2] GenomicStepVector::chrom_count (C++ function) GenomicStepVector::entry_count (C++ function) GenomicStepVector::GenomicStepVector (C++ function)

GtfReader (C++ class) GtfReader::GtfReader (C++ function) GtfReader::read_gencode_gtf_file (C++ function) GtfReader::read_gencode_gtf_line (C++ function) GtfReader::read_gtf_file (C++ function) GtfReader::read_gtf_line (C++ function) GtfReader::~GtfReader (C++ function)

M

Metagene (C++ class) Metagene::at (C++ function) Metagene::at_ends (C++ function)

Metagene::get_feature_names (C++ function) Metagene::get_n_features (C++ function) Metagene::Metagene (C++ function) Metagene::~Metagene (C++ function)

S

SamEntry (C++ class) SamEntry::cigar (C++ member) SamEntry::flag (C++ member) SamEntry::mapq (C++ member) SamEntry::parse_entry (C++ function) SamEntry::pnext (C++ member) SamEntry::pos (C++ member) SamEntry::qname (C++ member) SamEntry::qual (C++ member) SamEntry::rname (C++ member) SamEntry::rnext (C++ member) SamEntry::SamEntry (C++ function), [1] SamEntry::seq (C++ member) SamEntry::tags (C++ member)

SamEntry::tlen (C++ member) SamEntry::~SamEntry (C++ function) SamReader (C++ class) SamReader::read_pe_sam (C++ function) SamReader::read_sam_header (C++ function) SamReader::read_sam_line (C++ function) SamReader::SamReader (C++ function) SamReader::~SamReader (C++ function) StepVector (C++ class) StepVector::add (C++ function) StepVector::at (C++ function) StepVector::at_range (C++ function) StepVector::print_elements (C++ function) StepVector::StepVector (C++ function)