Watershed segmentation starting from the seeds. With a background seed the button Segment can be clicked to obtain a seeded Two different types of seeds exist, Object seeds and Background seeds - per default the background seed receives a higher priority such that the background seed is preferred in the case of ambiguous boundaries.Īfter marking the objects of interest with an object seed and the outside Interactive SegmentationĪfter the necessary preprocessing the interactive segmentation of objects in the labeling applet is the next step. On a i7 2.4GHz computer a 500×500×500 3D dataset requiresġ5 minutes of preprocessing. Note: The preprocessing may take a long time depending on the The image and boundary map which will speed up segmentation times. When everything looks fine, the user can click on the Run Preprocessing button to calculate a sparse supervoxel graph of Until a satisfactory boundary map is obtained. The Filtered Data layer is updated when the user changes the size of the smoothing kernel. If the boundary map looks too noisy or overly smooth the size of the smoothing kernel needs to be changed with the sigma option. To check if the computed boundaries visually correspond with the edges in the image the visibility of the Filtered Data layerĬan be toggled by clicking on the eye icon ( ) in that layer: In the example image above, a good boundary choice would clearly be dark lines.
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