ymir::MonoNucInsertionModel Class Reference

Inheritance diagram for ymir::MonoNucInsertionModel:

Public Member Functions
	MonoNucInsertionModel (prob_t err_prob)
	MonoNucInsertionModel (std::vector< prob_t >::const_iterator start, prob_t err_prob=0)
	MonoNucInsertionModel (const MonoNucInsertionModel &other)
MonoNucInsertionModel &	operator= (const MonoNucInsertionModel &other)
prob_t	nucProbability (const std::string &sequence, char first_char=NULL_CHAR, bool with_errors=false) const
	Probability of the given nucleotide sequence.
prob_t	nucProbability (std::string::const_iterator start, seq_len_t sequence_len, char first_char=NULL_CHAR, bool with_errors=false) const
prob_t	nucProbability (std::string::const_reverse_iterator start, seq_len_t sequence_len, char first_char=NULL_CHAR, bool with_errors=false) const
sequence_t	generate (seq_len_t len, std::default_random_engine &rg, char first_char=NULL_CHAR, bool reverse=false) const
prob_t	aaProbability (const std::string &sequence, char first_char=NULL_CHAR) const
prob_t	aaProbability (std::string::const_iterator start, seq_len_t sequence_len, char first_char=NULL_CHAR) const
prob_t	aaProbability (std::string::const_reverse_iterator start, seq_len_t sequence_len, char first_char=NULL_CHAR) const
Public Member Functions inherited from ymir::AbstractInsertionModel
	AbstractInsertionModel (uint8_t size, prob_t err_prob=0)
	AbstractInsertionModel (uint8_t size, std::vector< prob_t >::const_iterator start, prob_t err_prob=0)
	AbstractInsertionModel (const AbstractInsertionModel &other)
AbstractInsertionModel &	operator= (const AbstractInsertionModel &other)
prob_t	err_prob () const
virtual prob_t	aaProbability (const std::string &sequence, seq_len_t first_nuc_pos, seq_len_t last_nuc_pos, char first_char=NULL_CHAR) const =0
virtual prob_t	aaProbability (std::string::const_iterator start, seq_len_t first_nuc_pos, seq_len_t last_nuc_pos, char first_char=NULL_CHAR) const =0
virtual prob_t	aaProbability (std::string::const_reverse_iterator start, seq_len_t first_nuc_pos, seq_len_t last_nuc_pos, char first_char=NULL_CHAR) const =0
prob_t	operator[] (uint8_t index) const

Additional Inherited Members
Public Types inherited from ymir::AbstractInsertionModel
typedef unique_ptr< prob_t[]>	prob_array_t
Protected Member Functions inherited from ymir::AbstractInsertionModel
void	updateProbabilities (std::vector< prob_t >::const_iterator start)
void	updateProbabilities (prob_t *start)
void	updateProbabilities (std::vector< prob_t >::const_iterator start, prob_t err_prob)
void	updateProbabilities (prob_t *start, prob_t err_prob)
Protected Attributes inherited from ymir::AbstractInsertionModel
prob_array_t	_arr
prob_t	_err_prob
uint8_t	_size

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

• Ymir/src/insertionmodel.h