The **segmentation mask image** is the results of the segmentation step, and must be a black and white image where each object is white and separated from its neighbor by a black ridge. Importantly the ridge must be connected using 8-connectivity. For instance, this is good (the ridges can be connected by the pixel diagonals):
The following is **not good** (the ridges only move east west north and south):
The height-map.The height-map is an image of the exact same size that the segmentation image, and for which the pixel value reports the Z position of the tissue surface. For instance:
The height-map.The height-map is an image of the exact same size that the segmentation image, and for which the pixel value reports the Z position of the tissue surface. For instance:
On this example the pixel value is an integer that gives the Z-plane from which the projection pixel was taken.
On this example the pixel value is a float number that gives the Z position from which the projection pixel was taken.
We now explain the meaning of other parameters in an example using the images that are present in the `samples` folder of this repository. They are a small excerpt of a 3D image of a drosophila pupal notum labelled for E-cadherin, and projected with the LocalZProjector (courtesy of Léo Valon, [Romain Levayer lab](https://research.pasteur.fr/en/team/cell-death-and-epithelial-homeostasis/), Institut Pasteur).
