RNAlib-2.1.8
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Modules | |
Stochastic Backtracking of Consensus Structures from Sequence Alignment(s) | |
Stochastic Backtracking of Structures from Distance Based Partitioning | |
Contains functions related to stochastic backtracking from a specified distance class. |
Functions | |
char * | pbacktrack (char *sequence) |
Sample a secondary structure from the Boltzmann ensemble according its probability . | |
char * | pbacktrack_circ (char *sequence) |
Sample a secondary structure of a circular RNA from the Boltzmann ensemble according its probability. |
Variables | |
int | st_back |
Flag indicating that auxilary arrays are needed throughout the computations. This is essential for stochastic backtracking. |
char* pbacktrack | ( | char * | sequence | ) |
Sample a secondary structure from the Boltzmann ensemble according its probability
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sequence | The RNA sequence |
char* pbacktrack_circ | ( | char * | sequence | ) |
Sample a secondary structure of a circular RNA from the Boltzmann ensemble according its probability.
This function does the same as pbacktrack() but assumes the RNA molecule to be circular
\pre #st_back has to be set to 1 before calling pf_fold() or pf_fold_par() \pre pf_fold_par() or pf_circ_fold() have to be called first to fill the partition function matrices \param sequence The RNA sequence \return A sampled secondary structure in dot-bracket notation
int st_back |
Flag indicating that auxilary arrays are needed throughout the computations. This is essential for stochastic backtracking.
Set this variable to 1 prior to a call of pf_fold() to ensure that all matrices needed for stochastic backtracking are filled in the forward recursions