, including all inherited members.
| A_ (defined in StructureMapper) | StructureMapper | [protected] |
| argument_pointer typedef (defined in UnaryFunctor< Atom, Processor::Result >) | UnaryFunctor< Atom, Processor::Result > | |
| argument_reference typedef (defined in UnaryFunctor< Atom, Processor::Result >) | UnaryFunctor< Atom, Processor::Result > | |
| argument_type typedef (defined in UnaryFunctor< Atom, Processor::Result >) | UnaryFunctor< Atom, Processor::Result > | |
| B_ (defined in StructureMapper) | StructureMapper | [protected] |
| bijection_ (defined in StructureMapper) | StructureMapper | [protected] |
| calculateDefaultBijection() | StructureMapper | |
| calculateFragmentBijection(const vector< Fragment * > &A, const vector< Fragment * > &B) | StructureMapper | |
| calculateRMSD() | StructureMapper | |
| calculateTransformation() | StructureMapper | |
| const_argument_pointer typedef (defined in UnaryFunctor< Atom, Processor::Result >) | UnaryFunctor< Atom, Processor::Result > | |
| const_argument_reference typedef (defined in UnaryFunctor< Atom, Processor::Result >) | UnaryFunctor< Atom, Processor::Result > | |
| countFragments_(const AtomContainer &ac) const (defined in StructureMapper) | StructureMapper | [protected] |
| finish() | UnaryProcessor< Atom > | [virtual] |
| getBijection() const | StructureMapper | |
| getTransformation() const | TransformationProcessor | |
| mapFragments(const vector< Fragment * > &A, const vector< Fragment * > &B, Matrix4x4 *transformation, double upper_bound=8.0, double lower_bound=2.5) | StructureMapper | |
| mapProteins(Protein &P1, Protein &P2, std::map< String, Size > &type_map, Size &no_matched_ca, double &rmsd, double upper_bound=8.0, double lower_bound=4.0, double tolerance=0.6) | StructureMapper | |
| mapResiduesByBackbone(const list< Residue * > &l1, const list< Residue * > &l2) (defined in StructureMapper) | StructureMapper | |
| matchBackboneAtoms(const Residue &r1, const Residue &r2) (defined in StructureMapper) | StructureMapper | [static] |
| matchPoints(const Vector3 &w1, const Vector3 &w2, const Vector3 &w3, const Vector3 &v1, const Vector3 &v2, const Vector3 &v3) | StructureMapper | [static] |
| operator()(Atom &atom) | TransformationProcessor | [virtual] |
| result_type typedef (defined in UnaryFunctor< Atom, Processor::Result >) | UnaryFunctor< Atom, Processor::Result > | |
| rmsd_ (defined in StructureMapper) | StructureMapper | [protected] |
| searchPattern(vector< Fragment * > &pattern, AtomContainer &composite, double max_rmsd=4.0, double max_center_tolerance=2.0, double upper_bound=8.0, double lower_bound=4.0) (defined in StructureMapper) | StructureMapper | |
| set(AtomContainer &A, AtomContainer &B) | StructureMapper | |
| setTransformation(const Matrix4x4 &transformation) | TransformationProcessor | |
| start() | UnaryProcessor< Atom > | [virtual] |
| StructureMapper() | StructureMapper | |
| StructureMapper(AtomContainer &A, AtomContainer &B) | StructureMapper | |
| transformation_ (defined in TransformationProcessor) | TransformationProcessor | [protected] |
| TransformationProcessor() | TransformationProcessor | |
| TransformationProcessor(const Matrix4x4 &transformation) | TransformationProcessor | |
| UnaryProcessor() | UnaryProcessor< Atom > | |
| UnaryProcessor(const UnaryProcessor &) | UnaryProcessor< Atom > | |
| ~StructureMapper() | StructureMapper | [virtual] |
| ~UnaryProcessor() | UnaryProcessor< Atom > | [virtual] |