Nuclei Segmentation (Python)

Type

Author

Tosí, Sébastien

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Execution Platform

Implementation Type

Programming Language

Supported image dimension

Interaction Level

License/Openness

Description

This workflow processes images of cells with discernible nuclei and outputs a binary mask containing where nuclei are detected.

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Entry Curator

Workflow steps

Step 1: Run Gaussian Blur

Step 2: Run Adaptive Threshold

Step 3: Get Euclidean Distance Transform

Step 4: Run Gaussian Blur in Distance Transform

Step 5: Run Find Local Maxima

Step 6: Run watershed segmentation with the seeds of the local maxima

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