Abstract Shapes Representation of Secondary Structures
Functions
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char *vrna_abstract_shapes(const char *structure, unsigned int level)
- #include <ViennaRNA/utils/structures.h>
Convert a secondary structure in dot-bracket notation to its abstract shapes representation.
This function converts a secondary structure into its abstract shapes representation as presented by Giegerich et al. [2004] .
- SWIG Wrapper Notes:
This function is available as an overloaded function
abstract_shapes()where the optional second parameterleveldefaults to 5. See, e.g.RNA.abstract_shapes()in the Python API.
See also
- Parameters:
structure – A secondary structure in dot-bracket notation
level – The abstraction level (integer in the range of 0 to 5)
- Returns:
The secondary structure in abstract shapes notation
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char *vrna_abstract_shapes_pt(const short *pt, unsigned int level)
- #include <ViennaRNA/utils/structures.h>
Convert a secondary structure to its abstract shapes representation.
This function converts a secondary structure into its abstract shapes representation as presented by Giegerich et al. [2004] . This function is equivalent to vrna_db_to_shapes(), but requires a pair table input instead of a dot-bracket structure.
- SWIG Wrapper Notes:
This function is available as an overloaded function
abstract_shapes()where the optional second parameterleveldefaults to 5. See, e.g.RNA.abstract_shapes()in the Python API.
See also
Note
The length of the structure must be present at
pt[0]!- Parameters:
pt – A secondary structure in pair table format
level – The abstraction level (integer in the range of 0 to 5)
- Returns:
The secondary structure in abstract shapes notation
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char *vrna_abstract_shapes(const char *structure, unsigned int level)