Fig. 1

Interface of the MuscleJ2 plugin. Screenshots of the plugin dialog boxes. A The main dialog box MuscleJ2 is divided into five sections where the user must select from a drop-down menu or check boxes. The lowercase letters in red refer to dialog box 2, in which the channels and staining information must be indicated. B The Channel information dialog box is used to indicate the channel number for each requested analysis. Depending on the analyses selected in the MuscleJ2 dialog box, the design of this dialog box changes. In the upper panel, the lowercase letters in red refer to the section Data Analysis by Section (a, b, c); in the lower panel, they refer to the section Data Analysis by Fiber (d, e, f) and Data Cartographies (g)