This is the complete list of members for
LocARNA::RnaEnsembleImpl, including all inherited members.
arc_2_prob_ali(size_type i, size_type j) const | LocARNA::RnaEnsembleImpl | |
arc_2_prob_noali(size_type i, size_type j) const | LocARNA::RnaEnsembleImpl | |
arc_in_loop_prob_ali(size_type ip, size_type jp, size_type i, size_type j) const | LocARNA::RnaEnsembleImpl | |
arc_in_loop_prob_noali(size_type ip, size_type jp, size_type i, size_type j) const | LocARNA::RnaEnsembleImpl | |
compute_ensemble_probs(const PFoldParams ¶ms, bool inLoopProbs, bool use_alifold) | LocARNA::RnaEnsembleImpl | |
compute_McCaskill_alifold_matrices(const PFoldParams ¶ms, bool inLoopProbs) | LocARNA::RnaEnsembleImpl | |
compute_McCaskill_matrices(const PFoldParams ¶ms, bool inLoopProbs) | LocARNA::RnaEnsembleImpl | |
compute_Qm2() | LocARNA::RnaEnsembleImpl | |
compute_Qm2_ali() | LocARNA::RnaEnsembleImpl | |
expMLbase_ | LocARNA::RnaEnsembleImpl | |
in_loop_probs_available_ | LocARNA::RnaEnsembleImpl | |
McCmat_ | LocARNA::RnaEnsembleImpl | |
min_free_energy_ | LocARNA::RnaEnsembleImpl | |
min_free_energy_structure_ | LocARNA::RnaEnsembleImpl | |
pair_probs_available_ | LocARNA::RnaEnsembleImpl | |
ptype_of_admissible_basepair(size_type i, size_type j) const | LocARNA::RnaEnsembleImpl | |
qm2_ | LocARNA::RnaEnsembleImpl | |
RnaEnsembleImpl(const MultipleAlignment &sequence, const PFoldParams &pfparams, bool inLoopProbs, bool use_alifold) | LocARNA::RnaEnsembleImpl | |
sequence_ | LocARNA::RnaEnsembleImpl | |
stacking_probs_available_ | LocARNA::RnaEnsembleImpl | |
unpaired_in_loop_prob_ali(size_type k, size_type i, size_type j) const | LocARNA::RnaEnsembleImpl | |
unpaired_in_loop_prob_noali(size_type k, size_type i, size_type j) const | LocARNA::RnaEnsembleImpl | |
used_alifold_ | LocARNA::RnaEnsembleImpl | |
~RnaEnsembleImpl() | LocARNA::RnaEnsembleImpl | |