StochHMM  v0.34
Flexible Hidden Markov Model C++ Library and Application
 All Classes Namespaces Files Functions Variables Typedefs Enumerations Enumerator Friends Macros Groups Pages
StochHMM::PWM Member List

This is the complete list of members for StochHMM::PWM, including all inherited members.

_finalizeTransitions()StochHMM::PWMprivate
_getOrderedPositionNames(stringList &states, stringList &names)StochHMM::PWMprivate
_parseAmbiguous(std::string &txt)StochHMM::PWMprivate
_parseBackground(std::string &txt)StochHMM::PWMprivate
_parsePositions(std::string &txt)StochHMM::PWMprivate
_parseSpacer(std::string &txt)StochHMM::PWMprivate
_parseThreshold(std::string &txt)StochHMM::PWMprivate
_parseTrack(std::string &txt)StochHMM::PWMprivate
_splitPositions(std::string &txt, stringList &sts)StochHMM::PWMprivate
backScoredStochHMM::PWMprivate
backScoresStochHMM::PWMprivate
backWeightMatrixStochHMM::PWMprivate
backWeightNameStochHMM::PWMprivate
bgWeightStochHMM::PWMprivate
calculateBack(sequences *seqs, size_t position, float sum)StochHMM::PWMprivate
calculateBack(sequence *seq, size_t position, float sum)StochHMM::PWMprivate
currentThresholdStochHMM::PWMprivate
frontWeightMatrixStochHMM::PWMprivate
frontWeightNameStochHMM::PWMprivate
getTrack()StochHMM::PWMinline
import(std::string &file)StochHMM::PWM
import(const char *file)StochHMM::PWM
max_spacerStochHMM::PWMprivate
min_spacerStochHMM::PWMprivate
parse(const std::string &matrix)StochHMM::PWM
positionNamesStochHMM::PWMprivate
print()StochHMM::PWM
PWM()StochHMM::PWM
score(sequences *seqs)StochHMM::PWM
score(sequence *seq)StochHMM::PWM
scoreSimple(sequences *seqs)StochHMM::PWM
scoreSimple(sequence *seq)StochHMM::PWM
scoreUndefSpacer(sequences *seqs)StochHMM::PWM
scoreUndefSpacer(sequence *seq)StochHMM::PWM
scoreVariableSpacer(sequences *seqs)StochHMM::PWM
scoreVariableSpacer(sequence *seq)StochHMM::PWM
setBackground(emm *bg)StochHMM::PWMinline
setCurrentThreshold(float *thresh)StochHMM::PWMinline
setSimpleThreshold(float thresh)StochHMM::PWMinline
setTrack(track *tr)StochHMM::PWMinline
simpleStochHMM::PWMprivate
simpleThresholdStochHMM::PWMprivate
stringify()StochHMM::PWM
trkStochHMM::PWMprivate
undefinedSpacerStochHMM::PWMprivate
undefSpacerSizesStochHMM::PWMprivate
valTypeStochHMM::PWMprivate
variableSpacerStochHMM::PWMprivate
variableSpacerMatrixStochHMM::PWMprivate
variableTransitionStochHMM::PWMprivate
weightMatrixStochHMM::PWMprivate
Generated on Tue Jul 30 2013 13:23:13 for StochHMM by   doxygen 1.8.1