PrimarySequenceSet< TSequence > Class Template Reference

Class corresponding to a generic sequence set. More...

#include <seqpp/PrimarySequenceSet.h>

List of all members.

Public Member Functions
	PrimarySequenceSet ()
	default constructor
virtual	~PrimarySequenceSet ()
	destructor
const Translator &	get_translator () const
	allows a const access to the alphabet via a reference
short	tell_alphabet_size () const
	returns the alphabet size
short	tell_nb_inv () const
	returns the nber of invalid codes
TSequence &	get_sequence (int i) const
	allows a const access to ith sequence via a reference
TSequence &	operator() (int i) const
	allows a const access to ith sequence via a reference
int	tell_nb_sequence () const
	returns the number of sequences
virtual unsigned long	tell_length () const
	returns the total length
unsigned long	tell_length_max () const
	returns the length max
unsigned long	tell_length_seq (int i) const
	returns the length of sequence i
string	tell_seq_name (int i) const
	gives the name oh the ith file
string	tell_file_name (int i) const
	gives the name oh the ith file
void	weight_matrix (double **wmat) const
	compute the weight matrix associated to the sequences wmat[token][position in the sequence]
Protected Attributes
const Translator *	_transl
	Associated alphabet.
short	_nmodal
	number of possible observable value
int	_nb_seq
	Number of sequences in the array.
unsigned long	_total_length
	Total length.
unsigned long	_length_max
	Maximum length of a sequence.
TSequence **	_array_seq
	Array of sequences.

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Detailed Description

template<class TSequence>
class PrimarySequenceSet< TSequence >

Class corresponding to a generic sequence set.

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

• PrimarySequenceSet.h