1 #ifndef VIENNA_RNA_PACKAGE_MULTIBRANCH_LOOPS_H 2 #define VIENNA_RNA_PACKAGE_MULTIBRANCH_LOOPS_H 59 PRIVATE INLINE
int E_MLstem(
int type,
71 PRIVATE INLINE
FLT_OR_DBL exp_E_MLstem(
int type,
127 E_ml_rightmost_stem(
int i,
218 if (si1 >= 0 && sj1 >= 0)
219 energy += P->mismatchM[type][si1][sj1];
221 energy += P->dangle5[type][si1];
223 energy += P->dangle3[type][sj1];
226 energy += P->TerminalAU;
228 energy += P->MLintern[type];
235 exp_E_MLstem(
int type,
242 if (si1 >= 0 && sj1 >= 0)
243 energy = P->expmismatchM[type][si1][sj1];
245 energy = P->expdangle5[type][si1];
247 energy = P->expdangle3[type][sj1];
250 energy *= P->expTermAU;
252 energy *= P->expMLintern[type];
int vrna_E_mb_loop_stack(vrna_fold_compound_t *vc, int i, int j)
Evaluate energy of a multi branch helices stacking onto closing pair (i,j)
Auxiliary helper arrays for fast exterior loop computations.
Definition: multibranch_loops.h:31
double FLT_OR_DBL
Typename for floating point number in partition function computations.
Definition: data_structures.h:43
The most basic data structure required by many functions throughout the RNAlib.
Definition: fold_compound.h:130
The datastructure that contains temperature scaled energy parameters.
Definition: params.h:57
General utility- and helper-functions used throughout the ViennaRNA Package.
Various data structures and pre-processor macros.
Functions to deal with sets of energy parameters.
The data structure that contains temperature scaled Boltzmann weights of the energy parameters...
Definition: params.h:102
Base pair stack element.
Definition: data_structures.h:144
int vrna_BT_mb_loop(vrna_fold_compound_t *vc, int *i, int *j, int *k, int en, int *component1, int *component2)
Backtrack the decomposition of a multi branch loop closed by .