PlantSeg Interactive - Napari¶

Interactively apply operations to your images and run the segmentation pipeline using the GUI of PlantSeg. PlantSeg uses napari as its front-end.

Start PlantSeg according to your chosen installation method. From the terminal, you can start PlantSeg in the GUI mode with:

plantseg --napari
or
plantseg -n

Plantseg 2.0 interface

Parts of the GUI¶

Top left: Settings¶

Change your tool (pan, brush, boxselect, ...)
Change look of image (opacity, label colors,..)
Change tool settings (brush color & size, select shape)

Bottom left: Layer selection¶

Your loaded layers get displayed here. Toggle their visibility with the eye icon. Below, you can switch to a grid view or a 3D view with the respective icons.

Right: PlantSeg¶

This is the main interface of PlantSeg. On the bottom you can switch through the different sections of PlantSeg.