RNAlib-2.6.3
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Getting Started
Here, we give a brief introduction into the problems that can be addressed with RNAlib and how our implementations work in general
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Getting Started
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Installation and Configuration
A documentation on how to configure the different features of
RNAlib
, how to install the ViennaRNA Package, and finally, how to link you own programs against
RNAlib
HelloWorld
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HelloWorld (Perl/Python)
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Concepts and Algorithms
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RNA Structure
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Distance Measures
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Free Energy of Secondary Structures
A description on how secondary structures are decomposed into individual loops to eventually evaluate their stability in terms of free energy
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Secondary Structure Folding Grammar
A description of the basic grammar to generate secondary structures, used for almost all prediction algorithms in our library and how to modify it
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RNA Secondary Structure Landscapes
A description of the implicit landscape-like network of structures that appears upon modelling the transition of one structure into another
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Minimum Free Energy Algorithm(s)
Computing the Minimum Free Energy (MFE), i.e. the most stable conformation in thermodynamic equilibrium
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Partition Function and Equilibrium Probabilitiy Algorithm(s)
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Suboptimals and (other) Representative Structures
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RNA-RNA Interaction
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Locally Stable Secondary Structures
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Comparative Structure Prediction
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Classified DP variations
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RNA Sequence Design
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Experimental Structure Probing Data
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Ligand Binding
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(Tertiary) Structure Motifs
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I/O Formats
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RNA Structure Notations
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File Formats
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Plotting
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Basic Data Structures
Sequence and Structure Data
The 'Fold Compound'
Model Details
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API Features
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RNAlib API v3.0
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Callback Functions
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Scripting Language interface(s)
Additional Utilities
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Examples
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C Examples
Perl5 Examples
Python Examples
Contributing to the ViennaRNA Package
Changelog
Deprecated List
Bug List
Bibliography
Generated on Wed Jul 19 2023 20:07:36 for RNAlib-2.6.3 by
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