Victor
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Calculate scores for profile to sequence alignment. More...
Public Member Functions | |
ScoringP2S (SubMatrix *sub, AlignmentData *ad, Structure *str, Profile *pro, double cSeq) | |
Default constructor. More... | |
ScoringP2S (const ScoringP2S &orig) | |
Copy constructor. | |
virtual | ~ScoringP2S () |
Destructor. | |
virtual bool | checkSequence (const string &s) const |
Check if s consists only of characters defined in sub.getResidues. More... | |
virtual void | copy (const ScoringP2S &orig) |
Copy orig object to this object ("deep copy"). | |
virtual void | copy (const ScoringScheme &orig) |
Copy orig object to this object ("deep copy"). More... | |
virtual ScoringP2S * | newCopy () |
Construct a new "deep copy" of this object. | |
ScoringP2S & | operator= (const ScoringP2S &orig) |
Assignment operator. | |
virtual void | reverse () |
Reverse template sequence. | |
virtual double | scoring (int i, int j) |
Calculate scores to create matrix values. | |
Data Fields | |
AlignmentData * | ad |
Pointer to AlignmentData. | |
Structure * | str |
Pointer to Structure. | |
SubMatrix * | sub |
Substitution matrix. | |
Calculate scores for profile to sequence alignment.
ScoringP2S | ( | SubMatrix * | sub, |
AlignmentData * | ad, | ||
Structure * | str, | ||
Profile * | pro, | ||
double | cSeq | ||
) |
Default constructor.
sub | |
ad | |
str | |
pro | |
cSeq |
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virtualinherited |
Check if s consists only of characters defined in sub.getResidues.
s |
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virtualinherited |
Copy orig object to this object ("deep copy").
orig |