BoltzmannWeight Member List

This is the complete list of members for BoltzmannWeight, including all inherited members.

align_type	Weight
allow_DI	Weight
allow_ID	Weight
alpha	BoltzmannWeight
Average(const Frequencies &freq1, const Frequencies &freq2) const	BoltzmannWeight
AverageUIPAC() (defined in Weight)	Weight	[protected]
beta	BoltzmannWeight
BoltzmannWeight(const ScoreMatrix &s, double _scale, double temperature, double gap_open, double gap_extension, AlignmentType t, bool allow_DI=true, bool allow_ID=false)	BoltzmannWeight
BoltzmannWeight(const Alphabet &alphabet1, const Alphabet &alphabet2, const std::string &matrix_name, double temperature, double gap_open, double gap_extension, AlignmentType t, bool allow_DI=true, bool allow_ID=false)	BoltzmannWeight
exp_alpha	BoltzmannWeight
exp_beta	BoltzmannWeight
freq1	Weight
freq2	Weight
gap_extension	Weight
gap_open	Weight
GetAlphabet1() const	Weight	[inline]
GetAlphabet2() const	Weight	[inline]
IsBoltzmann() const	BoltzmannWeight	[inline, virtual]
Normalize(bool setupUIPAC=false)	Weight	[protected]
scale	Weight
StreamOut(std::ostream &ost)	Weight	[virtual]
tDD (defined in Weight)	Weight
tDE (defined in Weight)	Weight
tDI (defined in Weight)	Weight
tDM (defined in Weight)	Weight
temper	BoltzmannWeight
Temperature() const	BoltzmannWeight	[inline]
tID (defined in Weight)	Weight
tIE (defined in Weight)	Weight
tII (defined in Weight)	Weight
tIM (defined in Weight)	Weight
tMD (defined in Weight)	Weight
tME (defined in Weight)	Weight
tMI (defined in Weight)	Weight
tMM (defined in Weight)	Weight
tSD (defined in Weight)	Weight
tSI (defined in Weight)	Weight
tSM (defined in Weight)	Weight
Weight(const Alphabet &a1, const Alphabet &a2, AlignmentType t, bool _allow_DI=true, bool _allow_ID=false)	Weight
~BoltzmannWeight()	BoltzmannWeight	[inline, virtual]
~Weight()	Weight	[inline, virtual]