1 #ifndef VIENNA_RNA_PACKAGE_COFOLD_H
2 #define VIENNA_RNA_PACKAGE_COFOLD_H
8 #ifdef DEPRECATION_WARNINGS
10 # define DEPRECATED(func) func __attribute__ ((deprecated))
12 # define DEPRECATED(func) func
15 # define DEPRECATED(func) func
19 #define VRNA_BACKWARD_COMPAT
86 #ifdef VRNA_BACKWARD_COMPAT
103 cofold(
const char *sequence,
116 int is_constrained));
void update_cofold_params(void)
Recalculate parameters.
float cofold_par(const char *string, char *structure, vrna_param_t *parameters, int is_constrained)
Compute the minimum free energy of two interacting RNA molecules.
The datastructure that contains temperature scaled energy parameters.
Definition: params.h:50
void export_cofold_arrays(int **f5_p, int **c_p, int **fML_p, int **fM1_p, int **fc_p, int **indx_p, char **ptype_p)
Export the arrays of partition function cofold.
void update_cofold_params_par(vrna_param_t *parameters)
Recalculate parameters.
void export_cofold_arrays_gq(int **f5_p, int **c_p, int **fML_p, int **fM1_p, int **fc_p, int **ggg_p, int **indx_p, char **ptype_p)
Export the arrays of partition function cofold (with gquadruplex support)
void get_monomere_mfes(float *e1, float *e2)
get_monomer_free_energies
void free_co_arrays(void)
Free memory occupied by cofold()
float cofold(const char *sequence, char *structure)
Compute the minimum free energy of two interacting RNA molecules.
float vrna_cofold(const char *string, char *structure)
Compute Minimum Free Energy (MFE), and a corresponding secondary structure for two dimerized RNA sequ...
MFE calculations for single RNA sequences.
void initialize_cofold(int length)