Extended Data Fig. 2: Class frequencies and holdout block.
From: Whole-cell organelle segmentation in volume electron microscopy
a, 37 different classes are used to classify all intracellular structures. These classes are combined into 35, potentially overlapping semantic categories (see Supplementary Methods, Extended Data Fig. 1). Classes in bold depict these super classes. As an example, the ER object class is expanded in the subpanel. In green are classes that are predicted jointly by type ‘many’ networks. Denoted with a dot are the super classes, with a few additional classes, used in the type ‘few’ networks. The type ‘all’ networks train jointly on all 35 classes. b, Annotated volume according to datasets. Reported are the percentage of the total cell that is annotated. c, d, 3D rendering of thresholded predictions (c) and ground truth (d) in a 4 μm × 4 μm × 4 μm holdout block in jrc_hela-3. Shown are the nucleus (magenta), plasma membrane (grey), ER and NE (green), mitochondria (orange), vesicles (red), lysosomes (yellow), endosomes (blue), and microtubules (white).
