# RNA Secondary Structure Folding

This module contains all functions related to thermodynamic folding of RNAs. More...

Collaboration diagram for RNA Secondary Structure Folding:

## Modules
| Calculating Minimum Free Energy (MFE) Structures

| This module contains all functions and variables related to the calculation of global minimum free energy structures for single sequences.
| Calculating Partition Functions and Pair Probabilities

| This section provides information about all functions and variables related to the calculation of the partition function and base pair probabilities.
| Enumerating Suboptimal Structures
| Calculate Secondary Structures of two RNAs upon Dimerization

| Predict structures formed by two molecules upon hybridization.
| Predicting Consensus Structures from Alignment(s)

| compute various properties (consensus MFE structures, partition function, Boltzmann distributed stochastic samples, ...) for RNA sequence alignments
| Predicting Locally stable structures of large sequences
| Change and Precalculate Energy Parameter Sets and Boltzmann Factors

| All relevant functions to retrieve and copy precalculated energy parameter sets as well as reading/writing the energy parameter set from/to file(s).
| Energy evaluation

| This module contains all functions and variables related to energy evaluation of sequence/structure pairs.
| Searching Sequences for Predefined Structures
| Classified Dynamic Programming

## Detailed Description

This module contains all functions related to thermodynamic folding of RNAs.