basic.h File Reference
Functions and data structures for constraining secondary structure predictions and evaluation. More...
Include dependency graph for basic.h: This graph shows which files directly or indirectly include this file:Go to the source code of this file.
Macros | |
| #define | VRNA_CONSTRAINT_FILE 0 |
| Flag for vrna_constraints_add() to indicate that constraints are present in a text file. More... | |
| #define | VRNA_CONSTRAINT_SOFT_MFE 0 |
| Indicate generation of constraints for MFE folding. More... | |
| #define | VRNA_CONSTRAINT_SOFT_PF VRNA_OPTION_PF |
| Indicate generation of constraints for partition function computation. More... | |
| #define | VRNA_DECOMP_PAIR_HP (unsigned char)1 |
| Flag passed to generic softt constraints callback to indicate hairpin loop decomposition step. More... | |
| #define | VRNA_DECOMP_PAIR_IL (unsigned char)2 |
| Indicator for interior loop decomposition step. More... | |
| #define | VRNA_DECOMP_PAIR_ML (unsigned char)3 |
| Indicator for multibranch loop decomposition step. More... | |
| #define | VRNA_DECOMP_ML_ML_ML (unsigned char)5 |
| Indicator for decomposition of multibranch loop part. More... | |
| #define | VRNA_DECOMP_ML_STEM (unsigned char)6 |
| Indicator for decomposition of multibranch loop part. More... | |
| #define | VRNA_DECOMP_ML_ML (unsigned char)7 |
| Indicator for decomposition of multibranch loop part. More... | |
| #define | VRNA_DECOMP_ML_UP (unsigned char)8 |
| Indicator for decomposition of multibranch loop part. More... | |
| #define | VRNA_DECOMP_ML_ML_STEM (unsigned char)9 |
| Indicator for decomposition of multibranch loop part. More... | |
| #define | VRNA_DECOMP_ML_COAXIAL (unsigned char)10 |
| Indicator for decomposition of multibranch loop part. More... | |
| #define | VRNA_DECOMP_ML_COAXIAL_ENC (unsigned char)11 |
| Indicator for decomposition of multibranch loop part. More... | |
| #define | VRNA_DECOMP_EXT_EXT (unsigned char)12 |
| Indicator for decomposition of exterior loop part. More... | |
| #define | VRNA_DECOMP_EXT_UP (unsigned char)13 |
| Indicator for decomposition of exterior loop part. More... | |
| #define | VRNA_DECOMP_EXT_STEM (unsigned char)14 |
| Indicator for decomposition of exterior loop part. More... | |
| #define | VRNA_DECOMP_EXT_EXT_EXT (unsigned char)15 |
| Indicator for decomposition of exterior loop part. More... | |
| #define | VRNA_DECOMP_EXT_STEM_EXT (unsigned char)16 |
| Indicator for decomposition of exterior loop part. More... | |
| #define | VRNA_DECOMP_EXT_STEM_OUTSIDE (unsigned char)17 |
| Indicator for decomposition of exterior loop part. | |
| #define | VRNA_DECOMP_EXT_EXT_STEM (unsigned char)18 |
| Indicator for decomposition of exterior loop part. More... | |
| #define | VRNA_DECOMP_EXT_EXT_STEM1 (unsigned char)19 |
| Indicator for decomposition of exterior loop part. More... | |
Functions | |
| void | vrna_constraints_add (vrna_fold_compound_t *vc, const char *constraint, unsigned int options) |
| Add constraints to a vrna_fold_compound_t data structure. More... | |
Detailed Description
Functions and data structures for constraining secondary structure predictions and evaluation.
