Fig. 1.

Workflow for in toto follicle morphometrics extraction. a Full 3D stacks of non-compressed Indy-GFP (green) expressing follicles are obtained with confocal microscopy (b), after which a 3D pointcloud (b′) is extracted from the detected surface (b). c–f ImSAnE then converts the pointcloud into various 2D projections of segmented cells. g Projections and segmentation veracity are confirmed by 3D reconstruction of the follicle (see also Supplementary Movie 1). This workflow enables analyses of poles as well as axes along the follicle epithelium, as defined in (g), meridians connecting anterior (A) and posterior (P) poles, and circles of latitudes including the equator (circumference). Scale bars, 10 μm