PrerequisitesBefore starting this lesson, you should be familiar with:
Learning ObjectivesAfter completing this lesson, learners should be able to:
Segment intracellular objects and assign them to their parent cell
Very often in bioimage analysis one wants to measure the properties of certain intracellular objects (e.g. vesicles) per cell. For example, one may like to measure whether those objects are more frequent or larger in one cell than another. To perform such measurements it is very important to know how to assign (“child”) objects (e.g. vesicles) to (“parent”) objects (e.g. cells).
- Open the image xyc_16bit__nuclei_golgi.tif.
- Segment nuclei and Golgi
- Dilate nuclei to approximate cells
- Assign the Golgi fragments to their parent cell
- Measure the intensity of the child (Golgi) objects in the parent (cell) label mask
- You could, e.g., measure the
min = max: the child object is within one parent object
min != max: the child object overlaps with multiple parent objects
mode: the label of the parent object that the child object overlaps most with
min = 0: the child object is (partially) located outside of any parent cell
Show activity for:
Fill in the blanks
- TODO ___ .
- TODO ___ .
Recommended follow-up modules: