Detecting small structures (Watershed)

Introduction

This guide explains you how to detect small structures using watershed using the pipeline with the Normalization and Watershed operation. The purpose of the pipeline is to detect objects having almost any shape. The pipeline can be applied to cells, nuclei, or any kind of small particles.

Workflow

Flowchart of four stacked boxes labeled ROI selection → Normalization → Watershed Segmenter → Export data

Activating the Sample Pipeline

In the Shortcut Toolbar, click Analysis Panel .
In the Sample Pipelines list, double-click the Detect Small Structures Using Watershed 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 Hamburger menu icon showing three horizontal lines is displayed. When clicking on it, the option Open How to appears.

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 add or remove table columns, click Feature Columns...
For more information, refer to the Online Help (F1).

Detecting small structures (Watershed)

Introduction

Workflow

Activating the Sample Pipeline

Viewing the results

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