kaori::SimpleSingleMatch< max_size >::State Struct Reference

State of the search on a read sequence. More...

#include <SimpleSingleMatch.hpp>

Public Attributes
int	index = 0
size_t	position = 0
int	mismatches = 0
int	variable_mismatches = 0
bool	reverse = false

Detailed Description

template<size_t max_size>
struct kaori::SimpleSingleMatch< max_size >::State

State of the search on a read sequence.

Member Data Documentation

index

template<size_t max_size>

int kaori::SimpleSingleMatch< max_size >::State::index = 0

Index of the known barcode sequence that matches the variable region in the read sequence. This will be -1 if no match was found.

mismatches

template<size_t max_size>

int kaori::SimpleSingleMatch< max_size >::State::mismatches = 0

Total number of mismatches, including both the constant and variable regions. This should only be used if index != -1.

position

template<size_t max_size>

size_t kaori::SimpleSingleMatch< max_size >::State::position = 0

Position of the match to the template, reported as the position on the read at the start of the template. This should only be used if index != -1.

reverse

template<size_t max_size>

bool kaori::SimpleSingleMatch< max_size >::State::reverse = false

Whether the match was found on the reverse strand of the read sequence.

variable_mismatches

template<size_t max_size>

int kaori::SimpleSingleMatch< max_size >::State::variable_mismatches = 0

Total number of mismatches in the variable region. This should only be used if index != -1.

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The documentation for this struct was generated from the following file:

• kaori/SimpleSingleMatch.hpp