Figure 3.

Scheme of the segmentation algorithm. After transforming the images of the individual channels into binary masks and then combining them, the algorithm allows the user to choose between segmentation based on 1) morphological parameters (blue path) or 2) learning (red path). Once segmented, a mask is created for the SCW, the CML, and the CC. It is then applied to each fluorescent channel corresponding to the three monolignol reporters (H*, G*, and S*). For each fluorescence image, nine fluorescence intensity maps are thereby created and analyzed.