RNAstructure

Version 5.1

Copyright 1996 - 2010

by David H. Mathews

Overview

• Introduction
• Index
• What's New
• Secondary Structure Prediction Algorithm
• Overview of Main Menus

Nucleic Acid Analysis Tools

• Sequence Editor
• Available Modules for Prediction and Calculation
• Break RNA Pseudoknots
• Dot Plot
• Draw
• Dynalign
• Efn2 (Energy Function 2)
• Fold
• Generate All Suboptimal Structures
• MaxExpect: Predict MEA Structure
• OligoScreen
• OligoWalk
• ProbKnot: Predict RNA Secondary Structure Including Pseudoknots
• Partition Function
• Refolding
• Stochastic Sampling
• Tips and Techniques for Using Modules

Appendices

• Appendix A: File Formats
• Appendix B: Thermodynamic Parameters Used by RNAstructure

Contacting the Programmer

References