The Napari Assistant

The Napari Assistant is a plugin for napari that allows you setting up an image processing workflow.

Start Napari from the command line like this:

conda activate embo25

napari

The napari window will open. Start the Napari Assistant from the Tools > Utilities > Assistant (na) menu.

Drag & drop Lund.tif (Download here)

You can explore this dataset by clicking on the 2D/3D view button.

Within the Assistant panel, click on the Remove background button.

Click on the Eye buttons in the layer list to switch between the original image and the result of the Remove background step.

Click on the Label button in the Assistant panel to add a new step to the workflow that generates a label image from the current layer.

Toggle 2D/3D view and layer visibility to explore the result of the Label step.

After switching back to 2D view, click the Label button in the Assistant and choose the operation Connected component labeling (clEsperanto).

Explore other options and parameters.