Fig. 8: ITK-SNAP-CVE: A customized software tool for the visualization and interactive analysis of embryonic cell morphologies.

A The main graphical user interface of ITK-SNAP-CVE, showcasing the layout and available tools. B The visual representations of all cells within an embryo using the software’s “Show all cells” display mode, with 2D views (top) and 3D reconstructions (bottom). C–E The detailed visualization of a selected individual cell, i.e., the somatic founder cell “C”, within an embryo, as seen through different viewing options: Panel (C) “Show master cells only” display mode, highlighting the “C” cell alone. Panel (D) “Show master cells and neighbors” display mode, highlighting the “C” cell along with its immediate neighboring cells. Panel (E) “Show master cells and other cells” display mode, where the “C” cell is visible in the context of the entire cell population. F A comprehensive view of all cells derived from the same lineage, exemplified here by the MS sublineage, demonstrating the lineage-specific visualization capabilities of the software. G A display of all cells that are destined to become part of the same organ, in this case, the intestine, illustrating the software’s functionality to group cells by their developmental fate.