General Help

• 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 Maximum Expected Accuracy Structure
  • Multilign
  • OligoScreen
  • OligoWalk
  • Partition Function
  • ProbKnot: Predict Secondary Structure Including Pseudoknots
  • Refolding
  • Stochastic Sampling
  • TurboFold
• Tips and Techniques for Using Modules

Appendices

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

Contacting the Programmer

References