Name: Rnapdist
Author: vimalinx

Quick Start

When To Use This Tool

Use RNApdist when you need to compare RNA sequences by the distance between their thermodynamic structure ensembles, not by sequence identity alone.
It is useful for asking whether two RNAs have similar folding landscapes even if their minimum-free-energy structures are not identical.
Switch comparison mode with -X when you need a specific ensemble-distance definition for your analysis.
Use -B when you want a profile-style alignment output in addition to the distance values.

Use RNApdist when you need to compare RNA sequences by the distance between their thermodynamic structure ensembles, not by sequence identity alone.
It is useful for asking whether two RNAs have similar folding landscapes even if their minimum-free-energy structures are not identical.
Switch comparison mode with -X when you need a specific ensemble-distance definition for your analysis.
Use -B when you want a profile-style alignment output in addition to the distance values.