RNAstructure GUI Help -- Index

RNAstructure GUI Help
Index

A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

A About RNAstructure Accuracy Acknowledgements Algorithm Alignment File Format Annotating a Structure Asking for Help Audio Playback	N
B Breaking Pseudoknots Bulge Loop Size	O OligoScreen OligoScreen Thermodynamic Parameters OligoWalk OligoWalk Calculations OligoWalk Modes OligoWalk Results OligoWalk Thermodynamic Parameters Outputting Base Pair Probabilities Overview
C Calculating Stochastic Samples Calculation Modules Changing Temperature of Calculations Constraint File Format Creating a Sequence CT File Format	P Partition Function Partition Function Bimolecular Partition Function Dot Plots Plot Range Postscript Output Precision Predicting Base Pair Probabilities Predicting Pseudoknots Prediction Modules Printing a Structure Probability Annotation ProbKnot Pseudo-Energy Constraints (SHAPE) Pseudoknots Publication Quality Output
D DH Thermodynamic Parameters DNA Menu DNA Thermodynamic Parameters DNA-RNA Thermodynamic Parameters Dot Plot Appearance Dot Plot Color Selection Dot Plot Module Double Stranded Bases Draw Module Drawing a Structure DS Thermodynamic Parameters Dynalign Dot Plots Dynalign Thermodynamic Parameters	Q Quick Access Toolbar
E Editing a Sequence Efn2 (Energy Function 2) Enthalpy Thermodynamic Parameters	R Read While Typing Refold Refolding Dynalign Calculations Refolding Structures Rendering a Structure by Direction Report a Bug Resetting Constraints Restoring Constraints Reviewing Constraints RNA Menu
F FASTA File Format File Formats File Menu Folding Dot Plots Forbidding a Base Pair Forcing a Base Pair Forcing Double Stranded Bases Forcing Single Stranded Bases Formatting a Sequence Free Energy Calculation Free Energy Thermodynamic Parameters	S Saving Constraints Sequence Entry Particulars Sequence File Format SHAPE Annotation SHAPE Constraints SHAPE File Format Single Stranded Bases Specifying Chemical Modification Specifying FMN Cleavage Stochastic Sampling Support Switching Between Structures System Requirements
G Generating Suboptimal Structures	T Thermodynamic Parameters Toolbar
H Hard Constraints (SHAPE) Help Menu	U Using Calculation Constraints Using OligoScreen Using OligoWalk
I Image Output Internal Loop Size	V Variable Menus Viewing an Entire Structure
J	W
K	X
L List File Format Loading a Sequence	Y
M Making Suggestions Maximum Expected Accuracy Module List	Z Zooming a Structure