Characterization of clathrin-coated pits and coated vesicles. Data shown in this figure for Cells 12, 13, 15, and 17 were generated using the coated pit model employed in Fig. 7 obtained by training with ground truth annotations from Cell 12 prepared by HPFS and imaged at ∼5 nm isotropic resolution. (A) Violin plots of the major and minor axis and eccentricity of the fitted ellipse of all pits and vesicles in the raw images of the structures identified by the coated pit model. (B) Scatter plot of height versus neck width of endocytic clathrin-coated pits clustered in two groups associated with early and late stages of pit formation (left panel). The histogram compares the height and major axis for the fitted ellipse of late endocytic coated pits and coated vesicles, respectively. (C) Scatter plot of height versus neck width of “secretory” clathrin-coated pits associated with internal membranes.