Forna

Forna visualizes RNA secondary structures to produce interactive diagrams that support analysis of RNA structure-function relationships.

Key Features:

• Interactive visualization: Converts sequences and secondary structures into clean, concise, and customizable visual diagrams.
• Support for complex structures: Supports simultaneous visualization of multiple RNA structures and represents pseudoknotted structures.
• Interactive editing: Allows editing of displayed structures to modify base pairs and nucleotides within diagrams.
• PDB integration: Automatically generates secondary structure diagrams from Protein Data Bank (PDB) files.

Scientific Applications:

• Structure-function analysis: Visualization of RNA secondary structures to analyze relationships between nucleotide pairing and molecular function.
• Hypothesis generation: Editing and visualization to support formulation and assessment of hypotheses about functionally relevant nucleotides and base pairs.
• Large and pseudoknotted RNA studies: Examination of large or pseudoknotted RNA molecules involved in regulatory processes and molecular recognition.

Methodology:

Converts sequences and secondary structure representations into visual diagrams, generates secondary structure diagrams from PDB files, supports simultaneous handling of multiple structures, and provides interactive editing of displayed structures.