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Version 4.0.0 |
#include <seqpp/PrimarySequenceSet.h>
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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Contributors : M.Baudry, P.Y.Bourguignon, M.Hoebeke, V.Miele, P.Nicolas, G.Nuel, H.Richard, D.Robelin |