Combine Objects¶

Combine objects together for downstream analysis, usually done after object filtering.

plantcv.object_composition(img, contours, hierarchy)

returns grouped object, image mask

• Parameters:

  • img - RGB or grayscale image data for plotting
  • contours - Contour list
  • hierarchy - Contour hierarchy NumPy array

• Context:

  • This function combines objects together. This is important for downstream analysis of shape characteristics, if plant objects are not combined then one plant can appear to be many different objects.
• Example use:
  • Use in VIS tutorial
  • Use in NIR tutorial
  • Use in PSII tutorial

Original image

Highlighted contours

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"

# Combine objects so downstream analysis can be run on a single plant object
obj, mask = pcv.object_composition(img, roi_objects, hierarchy)

Combined contours

Source Code: Here