Measure object shape
Measures various spatial metrics for each object in a specified object collection from the workspace.
Description
Measures various spatial metrics for each object in a specified object collection from the workspace. Measurements are associated with the relevant input object. When dealing with 3D objects (those with coordinates spanning multiple Z-slices) a 2D projection into the XY plane will be used. 3D metrics are calculated using the "MorphoLibJ" plugin.
Parameters
| Parameter | Description |
|---|---|
| Input objects | Input objects from workspace. Shape metrics will be calculated for each object and stored as measurements associated with that object. |
| Measure volume | When selected, 3D volume metrics will be calculated for each input object. Metrics are: volume (px³), volume (calibrated_units³), number of voxels, base area (px²), base area (calibrated_units²), height (n_slices) and height (calibrated_units). |
| Measure projected area | When selected, 2D area metrics will be calculated for each input object. For 3D objects, a 2D projection in the XY plane is used for measurements. This projection includes all XY coordinates present in any Z-slice. Metrics are: area (px²) and area (calibrated_units²). |
| Measure projected diameter | When selected, the diameter of 2D objects will be calculated for each input object. For 3D objects, a 2D projection in the XY plane is used for measurements. This projection includes all XY coordinates present in any Z-slice. Metrics are: diameter (px) and diameter (calibrated_units). |
| Measure projected perimeter | When selected, the perimeter and circularity of 2D objects will be calculated for each input object. For 3D objects, a 2D projection in the XY plane is used for measurements. This projection includes all XY coordinates present in any Z-slice. Metrics are: perimeter (px), perimeter (calibrated_units) and circularity. |
| Measure 3D metrics | |
| Connectivity | |
| Surface area method | |
| Enable multithreading | Process multiple input objects simultaneously. This can provide a speed improvement when working on a computer with a multi-core CPU. |