RNAlib API Reference

Structure Prediction Algorithms

Fundamental Algorithms:

• Minimum Free Energy (MFE)
• Partition Function and Equilibrium Probabilities
• Suboptimals and Representative Structures
• Free Energy Evaluation

Advanced Algorithms:

• RNA-RNA Interaction
• Inverse Folding (Design)
• Classified Dynamic Programming Variants
• The RNA Secondary Structure Landscape

Tweaking the Predictions:

• Experimental Structure Probing Data
• Post-transcriptional Base Modifications
• Ligands Binding to RNA Structures
• Structure Modules and Pseudoknots
• RNA Folding Grammar

Utilities

Basic Utilities:

• Basic Utilities
• (Abstract) Data Structures
• Files and I/O
• Messages
• Log Messages

RNA Sequences and Structures:

• Nucleotide Alphabets
• Strings and Nucleic Acid Sequences
• Multiple Sequence Alignments
• RNA Secondary Structures

General Purpose:

• Mathematical Functions
• Data Handling and Manipulation
• Search Algorithms
• Combinatorics Algorithms
• Unit Conversion

Plotting:

• Plotting

SWIG Wrappers

SWIG Wrappers:

• SWIG Wrapper Notes
• The RNA Python module

Other

Other:

• Callbacks in RNAlib
• Deprecated List