Sample and enumerate suboptimal secondary structures from RNA sequence data. More...
Detailed Description
Sample and enumerate suboptimal secondary structures from RNA sequence data.
Collaboration diagram for Suboptimals and Representative Structures:Modules | |
| Suboptimal Structures sensu Stiegler et al. 1984 / Zuker et al. 1989 | |
| Suboptimal Structures within an Energy Band around the MFE | |
| Random Structure Samples from the Ensemble | |
| Functions to draw random structure samples from the ensemble according to their equilibrium probability. | |
| Compute the Structure with Maximum Expected Accuracy (MEA) | |
| Compute the Centroid Structure | |
Files | |
| file | boltzmann_sampling.h |
| Boltzmann Sampling of secondary structures from the ensemble. | |
| file | centroid.h |
| Centroid structure computation. | |
| file | MEA.h |
| Computes a MEA (maximum expected accuracy) structure. | |
| file | mm.h |
| Several Maximum Matching implementations. | |
| file | subopt.h |
| RNAsubopt and density of states declarations. | |
