Figure 1

RNAmap2D user interface. The main menu screen of RNAmap2D, which serves as the entry panel for all analyses. The user is asked to select the type of analysis (“a job”), provide the input filename, and indicate whether the program should use residue numbers from the input file or recalculate them. Additionally, for multi-model files (e.g. model ensemble analysis), the user is asked to define the tag that separates individual models in the input file.