Compartmentalizing cells or particles

Introduction

The pipeline purpose is to detect objects, falling in two different classes, using Blob Finder and the Intensity Threshold operator. The detected objects are compared to find partial or total overlap conditions. It can be applied to cells, nuclei or any kind of small particles.

Activating the Sample Pipeline

In the Shortcut Toolbar, click Analysis Panel .
In the Sample Pipelines list, double-click the Compartmentalize Cells or Particles Pipeline.
If you have activated a pipeline, it will be replaced by the new one.

You can open the appropriate How to guide. By hovering over a pipeline, this button is displayed. When clicking on it, the option Open How to appears.

Executing the pipeline

You can execute the pipeline step by step or in a single run. To do this, use the executing buttons in the Pipeline toolbar.

Executing step by step

You can execute the pipeline step by step (back and forth). This method allows to run and undo a single operation. You can either use the executing buttons in the Pipeline toolbar or in the Operation toolbar to go through the operation list.

To run the single operation, click .
To undo the single operation, click .
Note: Undo the last operation executed if you need to change the operation settings.

Viewing the results

If not already visible, open the Objects dialog. In Shortcut Toolbar, click Objects table .
Measurements are now visible in the objects table.
To show the results of each tag, click Single.
To show the compartment details, click Master-Detail.
Note: You must select the Compartmentalization tag first.
On the top table the list of the reference objects is shown.
To list the subjects belonging to them, click on a single or multiple references.
To add or remove table columns, click Feature Columns...
Note: Use the Master-Detail table to set the features independently for each table.
For more information, refer to the Online Help (F1).