minimizer_mapper.hpp File Reference

#include "algorithms/chain_items.hpp"
#include "algorithms/nearest_offsets_in_paths.hpp"
#include "algorithms/pad_band.hpp"
#include "aligner.hpp"
#include "vg/io/alignment_emitter.hpp"
#include "gbwt_extender.hpp"
#include "snarl_seed_clusterer.hpp"
#include "zip_code_tree.hpp"
#include "mapper.hpp"
#include "snarls.hpp"
#include "tree_subgraph.hpp"
#include "funnel.hpp"
#include <gbwtgraph/minimizer.h>
#include <structures/immutable_list.hpp>
#include <atomic>

Classes
class	vg::MinimizerMapper
struct	vg::MinimizerMapper::Minimizer
struct	vg::MinimizerMapper::aligner_stats_t
	Struct to represent per-DP-method stats. More...
struct	vg::MinimizerMapper::aligner_stats_t::stat_collection_t
	Collection of values you can +=. More...
struct	vg::MinimizerMapper::aligner_stats_t::stat_set_t
	Struct to represent counts of bases or seconds or invocations used by different aligners. More...

Namespaces
	vg

Detailed Description

Defines a mapper that uses the minimizer index and GBWT-based extension.