solution_viterbi.h File Reference

#include <map>
#include <iostream>
#include <array>
#include <string>
#include <limits>
#include <fstream>
#include <iomanip>
#include <complex>
#include <set>
#include "host_utils.h"
#include <cassert>

Go to the source code of this file.

Functions
template<typename PENALTY_T , int SOL_MAX_QUERY_LENGTH, int SOL_MAX_REFERENCE_LENGTH, int SOL_N_LAYERS>
void	viterbi_solution (std::string query, std::string reference, PENALTY_T &penalties, array< array< array< double, SOL_MAX_REFERENCE_LENGTH >, SOL_MAX_QUERY_LENGTH >, SOL_N_LAYERS > &score_mat, array< array< string, SOL_MAX_REFERENCE_LENGTH >, SOL_MAX_QUERY_LENGTH > &tb_mat, map< string, string > &alignments)
	Viterbi itself is a global alignment, don't need to consider the case of making it local. More...

Function Documentation

template<typename PENALTY_T , int SOL_MAX_QUERY_LENGTH, int SOL_MAX_REFERENCE_LENGTH, int SOL_N_LAYERS>

void viterbi_solution	(	std::string	query,
		std::string	reference,
		PENALTY_T &	penalties,
		array< array< array< double, SOL_MAX_REFERENCE_LENGTH >, SOL_MAX_QUERY_LENGTH >, SOL_N_LAYERS > &	score_mat,
		array< array< string, SOL_MAX_REFERENCE_LENGTH >, SOL_MAX_QUERY_LENGTH > &	tb_mat,
		map< string, string > &	alignments
	)

Viterbi itself is a global alignment, don't need to consider the case of making it local.

Template Parameters

PENALTY_T
SOL_MAX_QUERY_LENGTH
SOL_MAX_REFERENCE_LENGTH
SOL_N_LAYERS

Parameters

query
reference
penalties
score_mat
tb_mat
alignments