3D based on 2D: Calculating helix angles and stacking patterns using forgi 2.0, an RNA Python library centered on secondary structure elements. - Bernhard C. Thiel; Irene K. Beckmann; Peter Kerpedjiev; Ivo L. Hofacker (F1000Research, 2019)

Local RNA folding revisited. - Maria Waldl; Thomas Spicher; Ronny Lorenz; Irene K. Beckmann; Ivo L. Hofacker; Sarah von Löhneysen; Peter F. Stadler (J. Bioinform. Comput. Biol., 2023)