BioInt  1.02.00
BioInt: An integrative biological object-oriented application framework and interpreter
BioProteinSequenceLocalAlignment Member List
This is the complete list of members for BioProteinSequenceLocalAlignment, including all inherited members.
aminoAcidSeq_BioProteinSequenceAlignment [protected, static]
BioProteinSequenceAlignment()BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, BioProteinSequence, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, BioProteinSequence, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, BioProteinSequence, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, string, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, string, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, string, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, BioSwissProt, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, BioSwissProt, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, BioSwissProt, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, string, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, string, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, string, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const BioFasta &, const BioFasta &, const string &mat="BLOSUM62", const int &GP=-11, const int &extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, BioFasta, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, BioFasta, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, string, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, string, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, string, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const string &, const string &, const string &mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const string &, const string &, const string &, const string &, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const string &, const string &, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment()BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, BioProteinSequence, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, BioProteinSequence, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, BioProteinSequence, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, string, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, string, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, string, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, BioSwissProt, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, BioSwissProt, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, BioSwissProt, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, string, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, string, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, string, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const BioFasta &, const BioFasta &, const string &mat="BLOSUM62", const int &GP=-11, const int &extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, BioFasta, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, BioFasta, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, string, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, string, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, string, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const string &, const string &, const string &mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const string &, const string &, const string &, const string &, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const string &, const string &, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment()BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, BioProteinSequence, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, BioProteinSequence, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, BioProteinSequence, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, string, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, string, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, string, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, BioSwissProt, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, BioSwissProt, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, BioSwissProt, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, string, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, string, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, string, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const BioFasta &, const BioFasta &, const string &mat="BLOSUM62", const int &GP=-11, const int &extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, BioFasta, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, BioFasta, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, string, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, string, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, string, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const string &, const string &, const string &mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const string &, const string &, const string &, const string &, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const string &, const string &, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment()BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, BioProteinSequence, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, BioProteinSequence, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, BioProteinSequence, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, string, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, string, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, string, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, BioSwissProt, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, BioSwissProt, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, BioSwissProt, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, string, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, string, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, string, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const BioFasta &, const BioFasta &, const string &mat="BLOSUM62", const int &GP=-11, const int &extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, BioFasta, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, BioFasta, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, string, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, string, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, string, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const string &, const string &, const string &mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const string &, const string &, const string &, const string &, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const string &, const string &, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment()BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, BioProteinSequence, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, BioProteinSequence, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, BioProteinSequence, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, string, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, string, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioProteinSequence, string, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, BioSwissProt, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, BioSwissProt, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, BioSwissProt, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, string, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, string, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioSwissProt, string, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const BioFasta &, const BioFasta &, const string &mat="BLOSUM62", const int &GP=-11, const int &extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, BioFasta, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, BioFasta, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, string, string mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, string, string, string, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(BioFasta, string, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const string &, const string &, const string &mat="BLOSUM62", int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const string &, const string &, const string &, const string &, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceAlignment(const string &, const string &, int MS, int MMS, int GP=-11, int extn=-9999)BioProteinSequenceAlignment [protected]
BioProteinSequenceLocalAlignment()BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(BioProteinSequence, BioProteinSequence, string mat="BLOSUM62", int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(BioProteinSequence, BioProteinSequence, string, string, int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(BioProteinSequence, BioProteinSequence, int MS, int MMS, int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(BioProteinSequence, string, string mat="BLOSUM62", int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(BioProteinSequence, string, string, string, int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(BioProteinSequence, string, int MS, int MMS, int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(BioSwissProt, BioSwissProt, string mat="BLOSUM62", int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(BioSwissProt, BioSwissProt, string, string, int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(BioSwissProt, BioSwissProt, int MS, int MMS, int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(BioSwissProt, string, string mat="BLOSUM62", int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(BioSwissProt, string, string, string, int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(BioSwissProt, string, int MS, int MMS, int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(const BioFasta &, const BioFasta &, const string &mat="BLOSUM62", const int &GP=-50, const int &extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(BioFasta, BioFasta, string, string, int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(BioFasta, BioFasta, int MS, int MMS, int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(BioFasta, string, string mat="BLOSUM62", int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(BioFasta, string, string, string, int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(BioFasta, string, int MS, int MMS, int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(const string &, const string &, const string &mat="BLOSUM62", int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(const string &, const string &, const string &, const string &, int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
BioProteinSequenceLocalAlignment(const string &, const string &, int MS, int MMS, int GP=-50, int extn=-9999)BioProteinSequenceLocalAlignment
conseq_BioProteinSequenceAlignment [protected]
formScoringMatrix()BioProteinSequenceAlignment [protected]
formScoringMatrix()BioProteinSequenceAlignment [protected]
formScoringMatrix()BioProteinSequenceAlignment [protected]
formScoringMatrix()BioProteinSequenceAlignment [protected]
formScoringMatrix()BioProteinSequenceAlignment [protected]
gapExtnBioProteinSequenceAlignment [protected]
gapPenaltyBioProteinSequenceAlignment [protected]
getAccValMov(long, long, int)BioProteinSequenceAlignment [protected]
getAccValMov(long, long, int)BioProteinSequenceAlignment [protected]
getAccValMov(long, long, int)BioProteinSequenceAlignment [protected]
getAccValMov(long, long, int)BioProteinSequenceAlignment [protected]
getAccValMov(long, long, int)BioProteinSequenceAlignment [protected]
getAlignedSequence1()BioProteinSequenceLocalAlignment
getAlignedSequence2()BioProteinSequenceLocalAlignment
getIdentity()BioProteinSequenceLocalAlignment
getNumberOfIdentities()BioProteinSequenceLocalAlignment
getNumberOfSimilarities()BioProteinSequenceLocalAlignment
getScore()BioProteinSequenceLocalAlignment
getSequence1AlignedPosition()BioProteinSequenceLocalAlignment
getSequence2AlignedPosition()BioProteinSequenceLocalAlignment
init()BioProteinSequenceAlignment [protected]
init()BioProteinSequenceAlignment [protected]
init()BioProteinSequenceAlignment [protected]
init()BioProteinSequenceAlignment [protected]
init()BioProteinSequenceAlignment [protected]
outSeq1_BioProteinSequenceAlignment [protected]
outSeq2_BioProteinSequenceAlignment [protected]
scoringMatrixBioProteinSequenceAlignment [protected]
seq1_BioProteinSequenceAlignment [protected]
seq2_BioProteinSequenceAlignment [protected]
seqName1_BioProteinSequenceAlignment [protected]
seqName2_BioProteinSequenceAlignment [protected]
setGapPenalty(int GP=-11, int extn=-9999)BioProteinSequenceAlignment
setGapPenalty(int GP=-11, int extn=-9999)BioProteinSequenceAlignment
setGapPenalty(int GP=-11, int extn=-9999)BioProteinSequenceAlignment
setGapPenalty(int GP=-11, int extn=-9999)BioProteinSequenceAlignment
setGapPenalty(int GP=-11, int extn=-9999)BioProteinSequenceAlignment
setMatchMisMatchScore(int MS=1, int MMS=0)BioProteinSequenceAlignment
setMatchMisMatchScore(int MS=1, int MMS=0)BioProteinSequenceAlignment
setMatchMisMatchScore(int MS=1, int MMS=0)BioProteinSequenceAlignment
setMatchMisMatchScore(int MS=1, int MMS=0)BioProteinSequenceAlignment
setMatchMisMatchScore(int MS=1, int MMS=0)BioProteinSequenceAlignment
setSequence1(BioProteinSequence)BioProteinSequenceAlignment
setSequence1(BioSwissProt)BioProteinSequenceAlignment
setSequence1(BioFasta)BioProteinSequenceAlignment
setSequence1(const string &)BioProteinSequenceAlignment
setSequence1(BioProteinSequence)BioProteinSequenceAlignment
setSequence1(BioSwissProt)BioProteinSequenceAlignment
setSequence1(BioFasta)BioProteinSequenceAlignment
setSequence1(const string &)BioProteinSequenceAlignment
setSequence1(BioProteinSequence)BioProteinSequenceAlignment
setSequence1(BioSwissProt)BioProteinSequenceAlignment
setSequence1(BioFasta)BioProteinSequenceAlignment
setSequence1(const string &)BioProteinSequenceAlignment
setSequence1(BioProteinSequence)BioProteinSequenceAlignment
setSequence1(BioSwissProt)BioProteinSequenceAlignment
setSequence1(BioFasta)BioProteinSequenceAlignment
setSequence1(const string &)BioProteinSequenceAlignment
setSequence1(BioProteinSequence)BioProteinSequenceAlignment
setSequence1(BioSwissProt)BioProteinSequenceAlignment
setSequence1(BioFasta)BioProteinSequenceAlignment
setSequence1(const string &)BioProteinSequenceAlignment
setSequence2(BioProteinSequence)BioProteinSequenceAlignment
setSequence2(BioSwissProt)BioProteinSequenceAlignment
setSequence2(BioFasta)BioProteinSequenceAlignment
setSequence2(const string &)BioProteinSequenceAlignment
setSequence2(BioProteinSequence)BioProteinSequenceAlignment
setSequence2(BioSwissProt)BioProteinSequenceAlignment
setSequence2(BioFasta)BioProteinSequenceAlignment
setSequence2(const string &)BioProteinSequenceAlignment
setSequence2(BioProteinSequence)BioProteinSequenceAlignment
setSequence2(BioSwissProt)BioProteinSequenceAlignment
setSequence2(BioFasta)BioProteinSequenceAlignment
setSequence2(const string &)BioProteinSequenceAlignment
setSequence2(BioProteinSequence)BioProteinSequenceAlignment
setSequence2(BioSwissProt)BioProteinSequenceAlignment
setSequence2(BioFasta)BioProteinSequenceAlignment
setSequence2(const string &)BioProteinSequenceAlignment
setSequence2(BioProteinSequence)BioProteinSequenceAlignment
setSequence2(BioSwissProt)BioProteinSequenceAlignment
setSequence2(BioFasta)BioProteinSequenceAlignment
setSequence2(const string &)BioProteinSequenceAlignment
setSubstitutionMatrix(const string &)BioProteinSequenceAlignment
setSubstitutionMatrix(const string &, const string &)BioProteinSequenceAlignment
setSubstitutionMatrix(const string &)BioProteinSequenceAlignment
setSubstitutionMatrix(const string &, const string &)BioProteinSequenceAlignment
setSubstitutionMatrix(const string &)BioProteinSequenceAlignment
setSubstitutionMatrix(const string &, const string &)BioProteinSequenceAlignment
setSubstitutionMatrix(const string &)BioProteinSequenceAlignment
setSubstitutionMatrix(const string &, const string &)BioProteinSequenceAlignment
setSubstitutionMatrix(const string &)BioProteinSequenceAlignment
setSubstitutionMatrix(const string &, const string &)BioProteinSequenceAlignment
showAccumulationMatrix(ostream &=cout)BioProteinSequenceLocalAlignment
showAlignment(ostream &=cout)BioProteinSequenceLocalAlignment
showScoringMatrix(ostream &=cout)BioProteinSequenceAlignment
showScoringMatrix(ostream &=cout)BioProteinSequenceAlignment
showScoringMatrix(ostream &=cout)BioProteinSequenceAlignment
showScoringMatrix(ostream &=cout)BioProteinSequenceAlignment
showScoringMatrix(ostream &=cout)BioProteinSequenceAlignment
statusBioProteinSequenceAlignment [protected]
substitutionMatrixBioProteinSequenceAlignment [protected]
~BioProteinSequenceLocalAlignment()BioProteinSequenceLocalAlignment
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