Find Branch/Junction Points¶
Find branch/junction points in a skeletonized image.
plantcv.morphology.find_branch_pts(skel_img, mask=None)
returns Binary mask of branch points
- Parameters:
- skel_img - Skeleton image (output from plantcv.morphology.skeletonize)
- mask - Binary mask used for debugging image (optional). If provided the debug image will be overlaid on the mask.
- Context:
- Identifies branch/junction points in a skeleton image
Skeleton Image
from plantcv import plantcv as pcv
# Set global debug behavior to None (default), "print" (to file),
# or "plot" (Jupyter Notebooks or X11)
pcv.params.debug = "plot"
branch_points_img = pcv.morphology.find_branch_pts(skel_img=skeleton)
# Adjust line thickness with the global line thickness parameter (default = 5),
# and provide binary mask of the plant for debugging. NOTE: the image returned
# will be exactly the same, but the debugging image will look different.
pcv.params.line_thickness = 2
branch_points_img = pcv.morphology.find_branch_pts(skel_img=skeleton, mask=None)
branch_points_img = pcv.morphology.find_branch_pts(skel_img=skeleton, mask=plant_mask)
Branch Points Image (image getting returned)
Debug Image without Mask
Debug Image with Mask
Source Code: Here