Extract Objects

The Extract Objects command reads a labelled instance map and creates one segmentation-class object per labelled region. That map can come from Connected Components (or Watershed), or directly from an instance-segmentation command such as AI Cellpose Segmentation or AI Stardist Segmentation, which already separate touching objects on their own. These objects are the raw candidates passed to Classify Objects for final filtering and class assignment.

This is the boundary between “pixels” and “objects” in the pipeline: everything before this step operates on whole images, and everything after operates on individually addressable regions with their own metrics, mask, and object ID.

Each labelled region turns into an addressable object record with its own mask, geometry, and metrics

Parameters

Parameter	Description
Max objects before fail	Hard upper limit on the number of regions extracted. If more regions are found the pipeline step fails, preventing runaway processing on misconfigured segmentation (default: –1 = unlimited)

Pipeline position

Threshold → Connected Components → [Watershed] ─┐
                                                  ├─→ Extract Objects → Classify Objects
      AI Cellpose Segmentation / AI Stardist ────┘

Extract Objects is always followed by Classify Objects. The segmentation class assigned here is the intermediate class used internally; the final named object class is assigned by Classify Objects.