| DataStorageType typedef (defined in Prediction) | Prediction | |
| del() (defined in PlaceHolder) | PlaceHolder | [inline, virtual] |
| getClosestEnd3(int, int) const | SeqLoc | [inline, virtual] |
| getClosestEnd5(int) const | SeqLoc | [inline, virtual] |
| getDataSource() const | Prediction | [inline] |
| getEnd3() const | SeqLoc | [inline] |
| getEnd5() const | SeqLoc | [inline] |
| getModelId() const | Prediction | [inline] |
| getScore() const | Prediction | |
| getStrnd() const | SeqLoc | [inline] |
| getTypeStr() const | PlaceHolder | [inline, virtual] |
| getWholeShabang() const | PlaceHolder | [inline] |
| inRange(int) const | SeqLoc | |
| isActualOverlap(int, int) const | SeqLoc | [inline, virtual] |
| isEnd3Set() const | SeqLoc | |
| isEnd5Set() const | SeqLoc | |
| isOverlap (defined in SeqLoc) | SeqLoc | [friend] |
| length() const | SeqLoc | [inline] |
| makePlaceHolders() const | PlaceHolder | [inline, virtual] |
| operator==(const SeqLoc &sl) const | SeqLoc | [inline] |
| PlaceHolder(const Prediction &pred, const Prediction *big) (defined in PlaceHolder) | PlaceHolder | [inline] |
| Prediction(const SeqLoc &sl, AnnotationScore d, int modelId, const string &str) | Prediction | [inline] |
| Prediction(const Prediction &pred) | Prediction | [inline] |
| print(std::ostream &, const std::string &) const (defined in PlaceHolder) | PlaceHolder | |
| Prediction::print(std::ostream &os, const string &str) const | Prediction | [virtual] |
| SeqLoc(dsu::Strand_t, int, int) | SeqLoc | |
| SeqLoc(const SeqLoc &) | SeqLoc | |
| setEnd3(int) | SeqLoc | |
| setEnd5(int) | SeqLoc | |
| setScore(const AnnotationScore &s) | Prediction | [inline] |
| setStrnd(dsu::Strand_t strnd) | SeqLoc | [inline] |
| ~PlaceHolder() (defined in PlaceHolder) | PlaceHolder | [inline, virtual] |
| ~Prediction() | Prediction | [inline, virtual] |
| ~SeqLoc() | SeqLoc | [inline, virtual] |