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Augustus 3.4.0
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This is the complete list of members for PP::SingleTargetExonScorer, including all inherited members.
| aa_count (defined in PP::ExonScorer) | PP::ExonScorer | protected |
| addMatches(int beginOfBioExon, int endOfBioExon) (defined in PP::SingleTargetExonScorer) | PP::SingleTargetExonScorer | inlinevirtual |
| asNextPos(Position ppos) (defined in PP::ExonScorer) | PP::ExonScorer | inlineprotected |
| backward_mode (defined in PP::ExonScorer) | PP::ExonScorer | protected |
| beginOfFirstCodon (defined in PP::ExonScorer) | PP::ExonScorer | protected |
| blockCount() const (defined in PP::ExonScorer) | PP::ExonScorer | inlineprotected |
| blockScores (defined in PP::ExonScorer) | PP::ExonScorer | protected |
| blockSize(int b) const (defined in PP::ExonScorer) | PP::ExonScorer | inlineprotected |
| calcAllowedDist(bool is_last) (defined in PP::SingleTargetExonScorer) | PP::SingleTargetExonScorer | inline |
| complement (defined in PP::ExonScorer) | PP::ExonScorer | protected |
| createHitSequences(int ORFleft) (defined in PP::SingleTargetExonScorer) | PP::SingleTargetExonScorer | |
| currentHSColl (defined in PP::ExonScorer) | PP::ExonScorer | protected |
| endOfLastCodon (defined in PP::ExonScorer) | PP::ExonScorer | protected |
| endStateOffset (defined in PP::ExonScorer) | PP::ExonScorer | protected |
| exceedsBlock(Position ppos) const (defined in PP::ExonScorer) | PP::ExonScorer | inlineprotected |
| ExonScorer(SubstateModel &model, int endOfBioExon, StateType type) (defined in PP::ExonScorer) | PP::ExonScorer | inlineprotected |
| exportSubstates(ViterbiSubmapType &) (defined in PP::SingleTargetExonScorer) | PP::SingleTargetExonScorer | virtual |
| getBlock(int b) const (defined in PP::ExonScorer) | PP::ExonScorer | inlineprotected |
| getPredSubstate() (defined in PP::SingleTargetExonScorer) | PP::SingleTargetExonScorer | inlinevirtual |
| hasNewMax() (defined in PP::SingleTargetExonScorer) | PP::SingleTargetExonScorer | inlinevirtual |
| interBlockDist(int b) const (defined in PP::ExonScorer) | PP::ExonScorer | inlineprotected |
| interBlockFullDist(int b) const (defined in PP::ExonScorer) | PP::ExonScorer | inlineprotected |
| interBlockFullRange(int b) const (defined in PP::ExonScorer) | PP::ExonScorer | inlineprotected |
| interBlockRange(int b) const (defined in PP::ExonScorer) | PP::ExonScorer | inlineprotected |
| is_active (defined in PP::ExonScorer) | PP::ExonScorer | protected |
| mdl (defined in PP::ExonScorer) | PP::ExonScorer | protected |
| newFirstCodon(int beginOfBioExon) (defined in PP::ExonScorer) | PP::ExonScorer | inline |
| postProcessing(const Double &mainProb) (defined in PP::SingleTargetExonScorer) | PP::SingleTargetExonScorer | virtual |
| score(ViterbiColumnType &col, int predState, const Double &transEmiProb) (defined in PP::ExonScorer) | PP::ExonScorer | inline |
| scoreFirst(ViterbiColumnType &col, int predState, const Double &transEmiProb) (defined in PP::SingleTargetExonScorer) | PP::SingleTargetExonScorer | virtual |
| scoreFunPtr (defined in PP::ExonScorer) | PP::ExonScorer | protected |
| scoreInternal(ViterbiColumnType &col, int predState, const Double &transEmiProb) (defined in PP::SingleTargetExonScorer) | PP::SingleTargetExonScorer | virtual |
| SingleTargetExonScorer(SubstateModel &model, StateType etype, int endOfBioExon) (defined in PP::SingleTargetExonScorer) | PP::SingleTargetExonScorer | |
| SingleTargetExonScorer(SubstateModel &model, StateType etype, SubstateId substate, int endofBioExon, int ORFleft) (defined in PP::SingleTargetExonScorer) | PP::SingleTargetExonScorer | |
| validSize() (defined in PP::ExonScorer) | PP::ExonScorer | inline |
| ~ExonScorer() (defined in PP::ExonScorer) | PP::ExonScorer | inlinevirtual |
1.9.8