R4RNA

"R4RNA" is a software tool that enhances the visualization of secondary RNA structures through arc diagrams. Traditional methods for depicting RNA structures rely on planar stem-loop graphs, which can be limiting for representing complex features such as pseudo-knots, transient structures, and alternative structural configurations. The arc diagram methodology presented by R4RNA offers a more intuitive and flexible approach, capable of effectively displaying these intricate structural details.

One of the key advantages of arc diagrams is their ability to facilitate the comparison between known and predicted RNA secondary structures, thereby aiding in the assessment of structure prediction algorithms. Additionally, R4RNA enables the simultaneous display of structure information alongside multiple sequence alignments.