1 #ifndef VIENNA_RNA_PACKAGE_RNASTRUCT_H
2 #define VIENNA_RNA_PACKAGE_RNASTRUCT_H
37 char *
b2HIT(
const char *structure);
46 char *
b2C(
const char *structure);
64 char *
add_root(
const char *structure);
100 char *
unweight(
const char *wcoarse);
char * unweight(const char *wcoarse)
Strip weights from any weighted tree.
void parse_structure(const char *structure)
Collects a statistic of structure elements of the full structure in bracket notation.
char * expand_Full(const char *structure)
Convert the full structure from bracket notation to the expanded notation including root...
char * unexpand_Full(const char *ffull)
Restores the bracket notation from an expanded full or HIT tree, that is any tree using only identifi...
void unexpand_aligned_F(char *align[2])
Converts two aligned structures in expanded notation.
char * expand_Shapiro(const char *coarse)
Inserts missing 'S' identifiers in unweighted coarse grained structures as obtained from b2C()...
int helix_size[STRUC]
contains a list of all stack sizes.
char * b2C(const char *structure)
Converts the full structure from bracket notation to the a coarse grained notation using the 'H' 'B' ...
char * b2HIT(const char *structure)
Converts the full structure from bracket notation to the HIT notation including root.
int unpaired
contains the number of unpaired bases.
int loop_size[STRUC]
contains a list of all loop sizes. loop_size[0] contains the number of external bases.
char * add_root(const char *structure)
Adds a root to an un-rooted tree in any except bracket notation.
int loop_degree[STRUC]
contains the corresponding list of loop degrees.
char * b2Shapiro(const char *structure)
Converts the full structure from bracket notation to the weighted coarse grained notation using the '...
int loops
contains the number of loops ( and therefore of stacks ).
int pairs
contains the number of base pairs in the last parsed structure.