Antonie
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#include <string>
#include <vector>
#include <unordered_map>
#include <forward_list>
#include <map>
#include "antonie.hh"
#include "fastq.hh"
Go to the source code of this file.
Classes | |
struct | FASTQMapping |
Position of a FastQRead that is mapped here, and how (reverse complemented or with an indel, and where) More... | |
struct | GenomeLocusMapping |
List of all FASTQMapping s that map to a locus, plus coverage statistic. More... | |
struct | Unmatched |
A region with little coverage. More... | |
class | ReferenceGenome |
Represents a reference genome to be aligned against. More... | |
struct | ReferenceGenome::MatchDescriptor |
Describes how a FastQRead (not mentioned) matches to the reference (straight or in reverse), and what the matching score is. More... | |
struct | ReferenceGenome::LociStats |
statistics for a locus More... | |
struct | ReferenceGenome::LociStats::Difference |
A difference in this locus. More... | |
struct | ReferenceGenome::HashPos |