Fig. 2. An overview of our mesoscale modeling pipeline. first, the user specifies the segmentation of the membrane outlines (contours) and visible membrane-embedded proteins. contours and a histogram of amounts of proteins within individual parts of the membrane (a) are used for statistical contour modeling that is inflated into a 3d mesh and populated with membrane proteins (b). subsequently, the user specifies the rules outlining how invisible proteins should be placed within the 3d model. the output is the model (c), which can be iteratively refined by modifying the rules.